Citrus Sinensis ID: 020071

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-
Protein Sequence
MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAKAV
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccEEEEcccccccHHHHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHHHcccccccccEEEEEEccccccHHHHHHHHHHHHHHHccccEEEEEcccccccccccccccEEEcccccHHHHHHHHHHHHHHccccccHHHHHHHHHHccccHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccEEEcccccHHHHcccHHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHHcHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccccccEEEEEEccHHHccHHHHHHHHHHHHHHHcccHEEEEEccccccccHHHHcEEEEEcccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHEEEEcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
masssssssaydipwvekyrptkvcdivgNLDAVARLGIiardgnmpnlilagppgtgktTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQkkvtlppgkhkvvvldeadsmTAGAQQALRRTMEIYSNSTRFALACnvsskiiepiQSRCAIVRFSRLSDEEILSRLMVVVQEekvpyvpegLEAIIFTADGDMRQALNNLQAtysgfrfvnqenvfkvcdqphplhvKNMVRNVLEGKFDDACSGLkqlydlgysptDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAKAV
Flexible Loop (DISEMBL)
masssssssaydipwvekyrptkvcdIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFaqkkvtlppgkhKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAKAV
Low Complexity Region (SEG)
MAsssssssAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAKAV
Disordered region (IsUnstruct)
**********YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEAD***AGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR******
Disordered Region (DISOPRED)
**************WVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAK**
Disordered Region (DISEMBL)
**********YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAKAV
Disordered Region (DISPRO)
**********YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAKA*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAKAV
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	331	2.2.26 [Sep-21-2011]
P53033	359	Replication factor C subu	yes	no	0.969	0.894	0.651	1e-131
Q641W4	349	Replication factor C subu	yes	no	0.957	0.908	0.659	1e-130
P35250	354	Replication factor C subu	yes	no	0.969	0.906	0.654	1e-130
Q05B83	352	Replication factor C subu	yes	no	0.966	0.909	0.659	1e-129
Q9WUK4	349	Replication factor C subu	yes	no	0.957	0.908	0.656	1e-129
Q54E21	338	Probable replication fact	yes	no	0.942	0.923	0.642	1e-117
P53034	331	Replication factor C subu	yes	no	0.948	0.948	0.621	1e-116
O94449	342	Replication factor C subu	yes	no	0.957	0.926	0.603	1e-115
P40339	323	Replication factor C subu	yes	no	0.945	0.969	0.616	1e-115
Q9UXF5	330	Replication factor C smal	yes	no	0.945	0.948	0.472	5e-74

>sp|P53033|RFC2_CHICK Replication factor C subunit 2 OS=Gallus gallus GN=RFC2 PE=2 SV=1

 Score =  467 bits (1202), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 209/321 (65%), Positives = 269/321 (83%)

Query: 1   MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKT 60
           + S+ ++S  Y++PWVEKYRP K+C++VGN D V+RL + A++GN+PN+I+AGPPGTGKT
Sbjct: 29  LGSAPAASGHYELPWVEKYRPLKLCEVVGNEDTVSRLEVFAKEGNVPNIIIAGPPGTGKT 88

Query: 61  TSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEA 120
           TSIL LA  LLGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEA
Sbjct: 89  TSILCLARALLGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEA 148

Query: 121 DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLM 180
           DSMT GAQQALRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D +IL+RL+
Sbjct: 149 DSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDSQILARLL 208

Query: 181 VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHV 240
            +V++E VPY  +GLEAIIFTA GDMRQALNNLQ+TYSGF F+N ENVFKVCD+PHPL V
Sbjct: 209 KIVEKEDVPYTDDGLEAIIFTAQGDMRQALNNLQSTYSGFGFINSENVFKVCDEPHPLLV 268

Query: 241 KNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFA 300
           K M+++ +    D+A   L  L+ LGYSP D+I  +FR+ K ++M E+LKLEF+KE G+ 
Sbjct: 269 KEMIQHCINANIDEAYKILAHLWRLGYSPEDVIGNIFRVCKTFQMPEYLKLEFIKEIGYT 328

Query: 301 HMRICDGVGSYLQLCGLLAKL 321
           HM+I +GV S LQ+ GLLA+L
Sbjct: 329 HMKIAEGVNSLLQMAGLLARL 349

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. This subunit binds ATP.
Gallus gallus (taxid: 9031)

>sp|Q641W4|RFC2_RAT Replication factor C subunit 2 OS=Rattus norvegicus GN=Rfc2 PE=2 SV=1

 Score =  464 bits (1194), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 209/317 (65%), Positives = 267/317 (84%)

Query: 5   SSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSIL 64
           S ++  Y++PWVEKYRP K+ +IVGN D V+RL + AR+GN+PN+I+AGPPGTGKTTSIL
Sbjct: 23  SKTTGHYELPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSIL 82

Query: 65  ALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT 124
            LA  LLGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT
Sbjct: 83  CLARALLGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMT 142

Query: 125 AGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ 184
            GAQQALRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D ++LSRLM V++
Sbjct: 143 DGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQVLSRLMNVIE 202

Query: 185 EEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMV 244
           +EKVPY  +GLEAIIFTA GDMRQALNNLQ+T+SGF ++N ENVFKVCD+PHPL VK M+
Sbjct: 203 KEKVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGYINSENVFKVCDEPHPLLVKEMI 262

Query: 245 RNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRI 304
           ++ ++   D+A   L  L+ LGYSP D+I  +FR+ K + MAE+LKLEF+KE G+ HM++
Sbjct: 263 QHCVDANIDEAYKILAHLWHLGYSPEDVIGNIFRVCKTFPMAEYLKLEFIKEIGYTHMKV 322

Query: 305 CDGVGSYLQLCGLLAKL 321
            +GV S LQ+ GLLA+L
Sbjct: 323 AEGVNSLLQMAGLLARL 339

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. This subunit binds ATP.

Rattus norvegicus (taxid: 10116)

>sp|P35250|RFC2_HUMAN Replication factor C subunit 2 OS=Homo sapiens GN=RFC2 PE=1 SV=3

 Score =  464 bits (1193), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 210/321 (65%), Positives = 268/321 (83%)

Query: 1   MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKT 60
            + +  S+  Y++PWVEKYRP K+ +IVGN D V+RL + AR+GN+PN+I+AGPPGTGKT
Sbjct: 24  FSKAPGSAGHYELPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKT 83

Query: 61  TSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEA 120
           TSIL LA  LLGP  ++A++ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEA
Sbjct: 84  TSILCLARALLGPALKDAMLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEA 143

Query: 121 DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLM 180
           DSMT GAQQALRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D +IL+RLM
Sbjct: 144 DSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLM 203

Query: 181 VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHV 240
            V+++E+VPY  +GLEAIIFTA GDMRQALNNLQ+T+SGF F+N ENVFKVCD+PHPL V
Sbjct: 204 NVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFINSENVFKVCDEPHPLLV 263

Query: 241 KNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFA 300
           K M+++ +    D+A   L  L+ LGYSP DII  +FR+ K ++MAE+LKLEF+KE G+ 
Sbjct: 264 KEMIQHCVNANIDEAYKILAHLWHLGYSPEDIIGNIFRVCKTFQMAEYLKLEFIKEIGYT 323

Query: 301 HMRICDGVGSYLQLCGLLAKL 321
           HM+I +GV S LQ+ GLLA+L
Sbjct: 324 HMKIAEGVNSLLQMAGLLARL 344

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. This subunit binds ATP.

Homo sapiens (taxid: 9606)

>sp|Q05B83|RFC2_BOVIN Replication factor C subunit 2 OS=Bos taurus GN=RFC2 PE=2 SV=1

 Score =  462 bits (1190), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 211/320 (65%), Positives = 267/320 (83%)

Query: 2   ASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTT 61
           + +  S+  Y++PWVEKYRP K+ +IVGN D V+RL + AR+GN+PN+I+AGPPGTGKTT
Sbjct: 23  SKAPGSAGHYELPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTT 82

Query: 62  SILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEAD 121
           SIL LA  LLGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEAD
Sbjct: 83  SILCLARALLGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEAD 142

Query: 122 SMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMV 181
           SMT GAQQALRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D +IL+RL+ 
Sbjct: 143 SMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDMQILARLLS 202

Query: 182 VVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVK 241
           V+++EKV Y  +GLEAIIFTA GDMRQALNNLQ+TYSGF F+N ENVFKVCD+PHPL VK
Sbjct: 203 VIEKEKVQYTDDGLEAIIFTAQGDMRQALNNLQSTYSGFGFINSENVFKVCDEPHPLLVK 262

Query: 242 NMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAH 301
            M+++ +    D+A   L  L+ LGYSP DII  +FR+ K ++MAE+LKLEF+KE G+ H
Sbjct: 263 EMIQHCVSADIDEAYKILAHLWHLGYSPEDIIGNIFRVCKTFQMAEYLKLEFIKEIGYTH 322

Query: 302 MRICDGVGSYLQLCGLLAKL 321
           M+I +GV S LQ+ GLLA+L
Sbjct: 323 MKIAEGVNSLLQMAGLLARL 342

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. This subunit binds ATP.

Bos taurus (taxid: 9913)

>sp|Q9WUK4|RFC2_MOUSE Replication factor C subunit 2 OS=Mus musculus GN=Rfc2 PE=2 SV=1

 Score =  462 bits (1189), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 208/317 (65%), Positives = 267/317 (84%)

Query: 5   SSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSIL 64
           S ++  Y++PWVEKYRP K+ +IVGN D V+RL + AR+GN+PN+I+AGPPGTGKTTSIL
Sbjct: 23  SKTAGHYELPWVEKYRPLKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSIL 82

Query: 65  ALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT 124
            LA  LLGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT
Sbjct: 83  CLARALLGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMT 142

Query: 125 AGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ 184
            GAQQALRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D ++L+RLM V++
Sbjct: 143 DGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQVLTRLMNVIE 202

Query: 185 EEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMV 244
           +EKVPY  +GLEAIIFTA GDMRQALNNLQ+T+SGF ++N ENVFKVCD+PHPL VK M+
Sbjct: 203 KEKVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGYINSENVFKVCDEPHPLLVKEMI 262

Query: 245 RNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRI 304
           ++ ++   D+A   L  L+ LGYSP D+I  +FR+ K + MAE+LKLEF+KE G+ HM++
Sbjct: 263 QHCVDANIDEAYKILAHLWHLGYSPEDVIGNIFRVCKTFPMAEYLKLEFIKEIGYTHMKV 322

Query: 305 CDGVGSYLQLCGLLAKL 321
            +GV S LQ+ GLLA+L
Sbjct: 323 AEGVNSLLQMAGLLARL 339

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. This subunit binds ATP.

Mus musculus (taxid: 10090)

>sp|Q54E21|RFC2_DICDI Probable replication factor C subunit 2 OS=Dictyostelium discoideum GN=rfc2 PE=3 SV=1

 Score =  420 bits (1079), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 201/313 (64%), Positives = 249/313 (79%), Gaps = 1/313 (0%)

Query: 13  IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG 72
           +PWVEKYRP  + DIVGN + V+RL  I++DGN+PN+I++GPPGTGKT+SIL LA  LLG
Sbjct: 20  LPWVEKYRPILIKDIVGNEETVSRLESISKDGNLPNIIISGPPGTGKTSSILCLARALLG 79

Query: 73  PNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALR 132
            NY+EAV ELNASDDR +DVVR+KIK FA KKVTLP G+HK+++LDE DSMT+GAQQALR
Sbjct: 80  ANYKEAVYELNASDDRTLDVVRDKIKSFAMKKVTLPAGRHKIIILDEVDSMTSGAQQALR 139

Query: 133 RTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVP 192
           R MEIYS +TRFA ACN S+KIIEPIQSRCA++RF+RLSD +IL+RL  VVQ EKVPY  
Sbjct: 140 RIMEIYSGTTRFAFACNQSTKIIEPIQSRCAVLRFTRLSDSQILTRLREVVQIEKVPYTD 199

Query: 193 EGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKF 252
           +GL AIIFTA+GDMRQALNNLQAT+SGF  +N ENV KVCDQPHPL +K ++    +  F
Sbjct: 200 DGLAAIIFTAEGDMRQALNNLQATHSGFGLINAENVTKVCDQPHPLIIKQIIALCAKSDF 259

Query: 253 DDACSGLKQLYDLGYSPTDIITTLFRIIKNY-EMAEHLKLEFMKEAGFAHMRICDGVGSY 311
            +A   LK+L+D GYS  DII+ LF I K+   + E+ KLEF+KE GF ++R   GV + 
Sbjct: 260 KEAYPFLKKLWDDGYSSIDIISALFSITKSSNNIPEYQKLEFLKEIGFCNLRATTGVNTL 319

Query: 312 LQLCGLLAKLSIV 324
           +QL GLL+KL +V
Sbjct: 320 VQLTGLLSKLCLV 332

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins PCNA and activator 1.

Dictyostelium discoideum (taxid: 44689)

>sp|P53034|RFC2_DROME Replication factor C subunit 2 OS=Drosophila melanogaster GN=RfC4 PE=2 SV=1

 Score =  416 bits (1070), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 195/314 (62%), Positives = 243/314 (77%)

Query: 13  IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG 72
           +PW+EKYRP K  +IVGN D VARL + A  GN PN+I+AGPPG GKTT+I  LA  LLG
Sbjct: 16  LPWIEKYRPVKFKEIVGNEDTVARLSVFATQGNAPNIIIAGPPGVGKTTTIQCLARILLG 75

Query: 73  PNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALR 132
            +Y+EAV+ELNAS++RGIDVVRNKIKMFAQ+KVTLP G+HK+V+LDEADSMT GAQQALR
Sbjct: 76  DSYKEAVLELNASNERGIDVVRNKIKMFAQQKVTLPRGRHKIVILDEADSMTEGAQQALR 135

Query: 133 RTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVP 192
           RTMEIYS++TRFALACN S KIIEPIQSRCA++RF++LSD ++L++L+ V + EK+ Y  
Sbjct: 136 RTMEIYSSTTRFALACNTSEKIIEPIQSRCAMLRFTKLSDAQVLAKLIEVAKWEKLNYTE 195

Query: 193 EGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKF 252
           +GLEAI+FTA GDMRQ LNNLQ+T  GF  +  ENVFKVCD+PHP  ++ M+ +      
Sbjct: 196 DGLEAIVFTAQGDMRQGLNNLQSTAQGFGDITAENVFKVCDEPHPKLLEEMIHHCAANDI 255

Query: 253 DDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYL 312
             A   L +L+ LGYSP DII  +FR+ K   + EHLKL+F++E G  HM+I DG+ S L
Sbjct: 256 HKAYKILAKLWKLGYSPEDIIANIFRVCKRINIDEHLKLDFIREIGITHMKIIDGINSLL 315

Query: 313 QLCGLLAKLSIVRE 326
           QL  LLAKL I  E
Sbjct: 316 QLTALLAKLCIAAE 329

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins proliferating cell nuclear antigen (PCNA) and activator 1. Subunit 2 binds ATP.

Drosophila melanogaster (taxid: 7227)

>sp|O94449|RFC4_SCHPO Replication factor C subunit 4 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rfc4 PE=1 SV=1

 Score =  414 bits (1063), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 192/318 (60%), Positives = 252/318 (79%), Gaps = 1/318 (0%)

Query: 6   SSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILA 65
           ++S AY++PWVEKYRP  + DIVGN + + RL +IA++GNMP+L+++G PG GKTTSIL 
Sbjct: 14  NNSVAYELPWVEKYRPIVLDDIVGNEETIDRLKVIAKEGNMPHLVISGMPGIGKTTSILC 73

Query: 66  LAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA 125
           LAH LLGP Y+E V+ELNASD+RGIDVVRN+IK FAQKKV LPPG+HK+++LDEADSMTA
Sbjct: 74  LAHALLGPAYKEGVLELNASDERGIDVVRNRIKAFAQKKVILPPGRHKIIILDEADSMTA 133

Query: 126 GAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE 185
           GAQQALRRTMEIYSN+TRFALACN S+KIIEPIQSRCAI+R+SRL+D+++L RL+ + + 
Sbjct: 134 GAQQALRRTMEIYSNTTRFALACNQSNKIIEPIQSRCAILRYSRLTDQQVLQRLLNICKA 193

Query: 186 EKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVR 245
           EKV Y  +GL A+I TA+GDMRQA+NNLQ+T +GF  VN ENVF+V DQP P+ +  M+ 
Sbjct: 194 EKVNYTDDGLAALIMTAEGDMRQAVNNLQSTVAGFGLVNGENVFRVADQPSPVAIHAMLT 253

Query: 246 NVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE-MAEHLKLEFMKEAGFAHMRI 304
               G  D A   L+ ++DLG+S  DI+T +FR++K  + + E  +LE +KE G  HM I
Sbjct: 254 ACQSGNIDVALEKLQGIWDLGFSAVDIVTNMFRVVKTMDSIPEFSRLEMLKEIGQTHMII 313

Query: 305 CDGVGSYLQLCGLLAKLS 322
            +GV + LQL GL+ +L+
Sbjct: 314 LEGVQTLLQLSGLVCRLA 331

The elongation of primed DNA templates by DNA polymerase delta and epsilon requires the action of the accessory proteins PCNA and activator 1.

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

>sp|P40339|RFC4_YEAST Replication factor C subunit 4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RFC4 PE=1 SV=1

 Score =  414 bits (1063), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 196/318 (61%), Positives = 250/318 (78%), Gaps = 5/318 (1%)

Query: 6   SSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILA 65
           S + +  +PWVEKYRP  + DIVGN + + RL  IA+DGNMP++I++G PG GKTTS+  
Sbjct: 2   SKTLSLQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHC 61

Query: 66  LAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA 125
           LAHELLG +Y + V+ELNASDDRGIDVVRN+IK FAQKK+ LPPGKHK+V+LDEADSMTA
Sbjct: 62  LAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA 121

Query: 126 GAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE 185
           GAQQALRRTME+YSNSTRFA ACN S+KIIEP+QSRCAI+R+S+LSDE++L RL+ +++ 
Sbjct: 122 GAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSRCAILRYSKLSDEDVLKRLLQIIKL 181

Query: 186 EKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVR 245
           E V Y  +GLEAIIFTA+GDMRQA+NNLQ+T +G   VN +NVFK+ D PHPL VK M  
Sbjct: 182 EDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKM-- 239

Query: 246 NVLEGKFDDACSGLK-QLYDLGYSPTDIITTLFRIIKNY-EMAEHLKLEFMKEAGFAHMR 303
            +L    +D+   L+  L+  GYS  DI+TT FR+ KN  ++ E ++LE +KE G  HMR
Sbjct: 240 -LLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMR 298

Query: 304 ICDGVGSYLQLCGLLAKL 321
           I +GVG+YLQL  +LAK+
Sbjct: 299 ILEGVGTYLQLASMLAKI 316

Component of ATP-dependent clamp loader (RFC and RFC-like) complexes for DNA clamps, such as the POL30/PCNA homotrimer and the checkpoint clamp DDC1:MEC3:RAD17 complex. During a clamp loading circle, the RFC:clamp complex binds to DNA and the recognition of the double-stranded/single-stranded junction stimulates ATP hydrolysis by RFC. The complex presumably provides bipartite ATP sites in which one subunit supplies a catalytic site for hydrolysis of ATP bound to the neighboring subunit. Dissociation of RFC from the clamp leaves the clamp encircling DNA. Component of the replication factor C (RFC or activator 1) complex which loads POL30/PCNA and acts during elongation of primed DNA templates by DNA polymerase delta and epsilon. RFC has an essential but redundant activity in sister chromatid cohesion establishment. Component of the RFC-like complex CTF18-RFC which is required for efficient establishment of chromosome cohesion during S-phase and may load or unload POL30/PCNA. Component of the RFC-like RAD24-RFC complex which loads the checkpoint clamp DDC1:MEC3:RAD17 complex and is involved in DNA repair pathways. Component of the RFC-like ELG1-RFC complex which appears to have a role in DNA replication, replication fork re-start, recombination and repair.

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

>sp|Q9UXF5|RFCS_SULSO Replication factor C small subunit OS=Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) GN=rfcS PE=1 SV=1

 Score =  278 bits (710), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 152/322 (47%), Positives = 205/322 (63%), Gaps = 9/322 (2%)

Query: 7   SSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILAL 66
           S+   +I W EKYRP  + DIV   + + RL    ++ NMP+L+ AGPPGTGKTT+ LAL
Sbjct: 2   STKVEEILWAEKYRPKTLDDIVNQREIIDRLKKFVKEKNMPHLLFAGPPGTGKTTAALAL 61

Query: 67  AHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGK--HKVVVLDEADSMT 124
            H+L G NY E  +ELNASD+RGIDV+RNK+K FA+   T+ PG    KVV+LDEAD+MT
Sbjct: 62  VHDLYGDNYTEYFLELNASDERGIDVIRNKVKEFAR---TVIPGDIPFKVVLLDEADNMT 118

Query: 125 AGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ 184
           A AQQALRRTME+Y+ +TRF LACN  SKIIEPIQSR A+ RF  L  E++++RL+ + +
Sbjct: 119 ADAQQALRRTMELYTENTRFILACNYLSKIIEPIQSRTALFRFYPLKKEDVVNRLIYIAK 178

Query: 185 EEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMV 244
            EK  Y  + LE I     GDMR+++N LQA  S +  ++ E VFKV     P  V+ M+
Sbjct: 179 NEKAEYDQKALETIYDITMGDMRKSINILQAA-SAYGKISVEAVFKVLGLAQPKEVREMI 237

Query: 245 RNVLEGKFDDACSGLKQLY-DLGYSPTDIITTLFRIIKNYE--MAEHLKLEFMKEAGFAH 301
              L+GKF  A   L+ L    G S  DI+  + R I + E  ++E L++  +   G   
Sbjct: 238 NLALQGKFTQARDKLRTLLITYGLSGEDIVKQIHREITSSEIQISEELRVLLLDYIGETE 297

Query: 302 MRICDGVGSYLQLCGLLAKLSI 323
            RI +G    +QL  LLAK++I
Sbjct: 298 FRIIEGADDEIQLSALLAKMAI 319

Part of the RFC clamp loader complex which loads the PCNA sliding clamp onto DNA. The complex possesses DNA-dependent ATPase activity.

Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) (taxid: 273057)

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	331
225426826	330	PREDICTED: replication factor C subunit	0.990	0.993	0.905	1e-179
255537345	333	replication factor C / DNA polymerase II	0.966	0.960	0.906	1e-177
449460473	331	PREDICTED: replication factor C subunit	0.996	0.996	0.906	1e-177
224074887	330	predicted protein [Populus trichocarpa]	0.990	0.993	0.893	1e-176
388504120	333	unknown [Medicago truncatula]	0.978	0.972	0.885	1e-175
356514052	331	PREDICTED: replication factor C subunit	0.975	0.975	0.898	1e-174
297837097	334	hypothetical protein ARALYDRAFT_475032 [	0.969	0.961	0.897	1e-173
356563210	332	PREDICTED: replication factor C subunit	1.0	0.996	0.894	1e-173
357165331	333	PREDICTED: replication factor C subunit	0.975	0.969	0.869	1e-172
115459988	335	Os04g0569000 [Oryza sativa Japonica Grou	0.993	0.982	0.861	1e-171

>gi|225426826|ref|XP_002283246.1| PREDICTED: replication factor C subunit 2 [Vitis vinifera] gi|297742576|emb|CBI34725.3| unnamed protein product [Vitis vinifera]

 Score =  632 bits (1630), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 297/328 (90%), Positives = 314/328 (95%)

Query: 3   SSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTS 62
           +SSSS S YD+PWVEKYRPTKV DIVGN D V+RL +IARDGNMPNLIL+GPPGTGKTTS
Sbjct: 2   ASSSSMSNYDMPWVEKYRPTKVADIVGNEDTVSRLQVIARDGNMPNLILSGPPGTGKTTS 61

Query: 63  ILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADS 122
           +LALAHELLG NYREAV+ELNASDDRGIDVVRNKIKMFAQKKVTLP G HK+V+LDEADS
Sbjct: 62  VLALAHELLGANYREAVLELNASDDRGIDVVRNKIKMFAQKKVTLPSGSHKIVILDEADS 121

Query: 123 MTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVV 182
           MT GAQQALRRTMEIYSNSTRFALACN+SSKIIEPIQSRCAIVRFSRLSD+EIL RLMVV
Sbjct: 122 MTTGAQQALRRTMEIYSNSTRFALACNISSKIIEPIQSRCAIVRFSRLSDQEILGRLMVV 181

Query: 183 VQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKN 242
           V+ EKVP+VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKN
Sbjct: 182 VEAEKVPFVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKN 241

Query: 243 MVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHM 302
           MVRNVLEGKFDDAC GLKQLYDLGYSPTDIITTLFRIIKNY+MAE+LKLEFMKE GFAHM
Sbjct: 242 MVRNVLEGKFDDACYGLKQLYDLGYSPTDIITTLFRIIKNYDMAEYLKLEFMKETGFAHM 301

Query: 303 RICDGVGSYLQLCGLLAKLSIVRETAKA 330
           RICDGVGSYLQLCGLLAKL++VRETAKA
Sbjct: 302 RICDGVGSYLQLCGLLAKLAVVRETAKA 329

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537345|ref|XP_002509739.1| replication factor C / DNA polymerase III gamma-tau subunit, putative [Ricinus communis] gi|223549638|gb|EEF51126.1| replication factor C / DNA polymerase III gamma-tau subunit, putative [Ricinus communis]

 Score =  627 bits (1616), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 290/320 (90%), Positives = 314/320 (98%)

Query: 11  YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
           YD+PWVEKYRP+K+CDIVGN DAV+RL +IARDGNMPNLIL+GPPGTGKTTSILALAHEL
Sbjct: 13  YDVPWVEKYRPSKICDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL 72

Query: 71  LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
           LGPNY+EAV+ELNASDDRGIDVVRNKIKMFAQKKVTLPPG+HKVV+LDEADSMT+GAQQA
Sbjct: 73  LGPNYKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLPPGRHKVVILDEADSMTSGAQQA 132

Query: 131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
           LRRTMEIYSNSTRFALACN SSKIIEPIQSRCA+VRFSRLSD+EIL RL++VVQ EKVPY
Sbjct: 133 LRRTMEIYSNSTRFALACNTSSKIIEPIQSRCALVRFSRLSDQEILGRLIIVVQAEKVPY 192

Query: 191 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG 250
           VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVR+V+EG
Sbjct: 193 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRHVMEG 252

Query: 251 KFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
           K+DDACSGLKQLYDLGYSPTDIITTLFRIIKNY+MAE+LKLEFMKE GFAHMRICDGVGS
Sbjct: 253 KYDDACSGLKQLYDLGYSPTDIITTLFRIIKNYDMAEYLKLEFMKETGFAHMRICDGVGS 312

Query: 311 YLQLCGLLAKLSIVRETAKA 330
           YLQLCGLLAKL++VR+TA+A
Sbjct: 313 YLQLCGLLAKLALVRDTARA 332

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449460473|ref|XP_004147970.1| PREDICTED: replication factor C subunit 2-like [Cucumis sativus] gi|449494241|ref|XP_004159490.1| PREDICTED: replication factor C subunit 2-like [Cucumis sativus]

 Score =  625 bits (1612), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 299/330 (90%), Positives = 318/330 (96%)

Query: 1   MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKT 60
           MASSS SSS YDIPWVEKYRP KV DIVGN DAV+RL +IARDGNMPNLIL+GPPGTGKT
Sbjct: 1   MASSSGSSSNYDIPWVEKYRPNKVTDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKT 60

Query: 61  TSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEA 120
           TSILALAHELLGPNY+E V+ELNASDDRGIDVVRNKIKMFAQKKVTLPPG+HKVV+LDEA
Sbjct: 61  TSILALAHELLGPNYKEGVLELNASDDRGIDVVRNKIKMFAQKKVTLPPGRHKVVILDEA 120

Query: 121 DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLM 180
           DSMT GAQQALRRTMEIYSN+TRFALACN SSKIIEPIQSRCAIVRFSRL+D+EIL RLM
Sbjct: 121 DSMTTGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLTDQEILGRLM 180

Query: 181 VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHV 240
           VV+Q EKVPYVPEGLEAIIFTADGDMRQALNNLQAT+SGFRFVNQ+NVFKVCDQPHPLHV
Sbjct: 181 VVIQAEKVPYVPEGLEAIIFTADGDMRQALNNLQATHSGFRFVNQDNVFKVCDQPHPLHV 240

Query: 241 KNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFA 300
           KN+VRNVLEGKFDDAC+GL+QLYDLGYSPTDIITTLFRIIKNY+MAE+LKLEFMKE GFA
Sbjct: 241 KNVVRNVLEGKFDDACTGLRQLYDLGYSPTDIITTLFRIIKNYDMAEYLKLEFMKETGFA 300

Query: 301 HMRICDGVGSYLQLCGLLAKLSIVRETAKA 330
           HMRICDGVGSYLQLCGLLAKLS+VRETAKA
Sbjct: 301 HMRICDGVGSYLQLCGLLAKLSMVRETAKA 330

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224074887|ref|XP_002304476.1| predicted protein [Populus trichocarpa] gi|222841908|gb|EEE79455.1| predicted protein [Populus trichocarpa]

 Score =  624 bits (1609), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 293/328 (89%), Positives = 314/328 (95%)

Query: 3   SSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTS 62
           +SSS+SS YDIPWVEKYRP KV DIVGN DAV+RL +IARDGNMPNLILAGPPGTGKTTS
Sbjct: 2   ASSSNSSNYDIPWVEKYRPNKVADIVGNQDAVSRLQVIARDGNMPNLILAGPPGTGKTTS 61

Query: 63  ILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADS 122
           ILALAHELLGPN +EAV+ELNASDDRGIDVVRNKIKMFAQKKVTLPPG+HK+V+LDEADS
Sbjct: 62  ILALAHELLGPNSKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLPPGQHKIVILDEADS 121

Query: 123 MTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVV 182
           MT+GAQQALRRTMEIYSNSTRFALACN SSKIIEPIQSRCAIVRFSRLSD+EIL RLMVV
Sbjct: 122 MTSGAQQALRRTMEIYSNSTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMVV 181

Query: 183 VQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKN 242
           V  E+VPYVPEGLEAIIFTADGDMRQALNNLQAT+SGF FVNQENVFKVCDQPHPLHVKN
Sbjct: 182 VGAEQVPYVPEGLEAIIFTADGDMRQALNNLQATHSGFHFVNQENVFKVCDQPHPLHVKN 241

Query: 243 MVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHM 302
           MVR VLEGKFDDACSGLK LYD+GYSPTDIITTLFRIIKNY+MAE++KLEFMKE GFAHM
Sbjct: 242 MVRQVLEGKFDDACSGLKHLYDMGYSPTDIITTLFRIIKNYDMAEYMKLEFMKETGFAHM 301

Query: 303 RICDGVGSYLQLCGLLAKLSIVRETAKA 330
           RICDGVGSYLQLCGLLAKL++VR+TA+A
Sbjct: 302 RICDGVGSYLQLCGLLAKLALVRDTARA 329

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388504120|gb|AFK40126.1| unknown [Medicago truncatula]

 Score =  619 bits (1595), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 287/324 (88%), Positives = 312/324 (96%)

Query: 7   SSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILAL 66
           ++++YD+PWVEKYRP+KV DIVGN DAV+RL +IARDGNMPNLIL+GPPGTGKTTSILAL
Sbjct: 9   NTASYDVPWVEKYRPSKVVDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILAL 68

Query: 67  AHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG 126
           AHELLGPNYREAV+ELNASDDRGIDVVRNKIKMFAQKKVTLPPG+HKVV+LDEADSMT+G
Sbjct: 69  AHELLGPNYREAVLELNASDDRGIDVVRNKIKMFAQKKVTLPPGRHKVVILDEADSMTSG 128

Query: 127 AQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEE 186
           AQQALRRTMEIYSNSTRFALACN SSKIIEPIQSRCAIVRFSRLSD+EIL RLMVVVQ E
Sbjct: 129 AQQALRRTMEIYSNSTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMVVVQAE 188

Query: 187 KVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRN 246
           KVPYVPEGLEAIIFTADGDMRQ LNNLQAT+SGF+FVNQ NVFKVCDQPHPLHVKNMVRN
Sbjct: 189 KVPYVPEGLEAIIFTADGDMRQGLNNLQATFSGFQFVNQANVFKVCDQPHPLHVKNMVRN 248

Query: 247 VLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICD 306
           V+EG FD+ACSGLKQLYDLGYSPTDIITTLFRIIK+Y+MAE+LKLEFMKE GFAHMRICD
Sbjct: 249 VIEGNFDEACSGLKQLYDLGYSPTDIITTLFRIIKSYDMAEYLKLEFMKETGFAHMRICD 308

Query: 307 GVGSYLQLCGLLAKLSIVRETAKA 330
           GVGSYLQ+CGLLAK ++VR+TA A
Sbjct: 309 GVGSYLQMCGLLAKFALVRDTANA 332

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356514052|ref|XP_003525721.1| PREDICTED: replication factor C subunit 2-like [Glycine max]

 Score =  616 bits (1588), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 291/324 (89%), Positives = 311/324 (95%), Gaps = 1/324 (0%)

Query: 9   SAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAH 68
           +AYD+PWVEKYRP+KV DIVGN DAV+RL +IARDGNMPNLIL+GPPGTGKTTSILALAH
Sbjct: 8   NAYDVPWVEKYRPSKVADIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAH 67

Query: 69  ELLG-PNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA 127
           ELLG PN +EAV+ELNASDDRGIDVVRNKIKMFAQKKVTL PG+HK+V+LDEADSMT GA
Sbjct: 68  ELLGGPNCKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLTPGRHKIVILDEADSMTTGA 127

Query: 128 QQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEK 187
           QQALRRTMEIYSN+TRFALACN S+KIIEPIQSRCAIVRFSRLSD+EIL RLMVVVQ EK
Sbjct: 128 QQALRRTMEIYSNTTRFALACNTSAKIIEPIQSRCAIVRFSRLSDQEILGRLMVVVQAEK 187

Query: 188 VPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNV 247
           VPYVPEGLEAIIFTADGDMRQALNNLQATYSGF+FVNQ NVFKVCDQPHPLHVKNMVRNV
Sbjct: 188 VPYVPEGLEAIIFTADGDMRQALNNLQATYSGFQFVNQANVFKVCDQPHPLHVKNMVRNV 247

Query: 248 LEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDG 307
           +EG FD+ACSGLKQLYDLGYSPTDIITTLFRIIKNY+MAE+LKLEFMKE GFAHMRICDG
Sbjct: 248 IEGNFDEACSGLKQLYDLGYSPTDIITTLFRIIKNYDMAEYLKLEFMKETGFAHMRICDG 307

Query: 308 VGSYLQLCGLLAKLSIVRETAKAV 331
           VGSYLQLCGLLAKLS+VRETAKAV
Sbjct: 308 VGSYLQLCGLLAKLSLVRETAKAV 331

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297837097|ref|XP_002886430.1| hypothetical protein ARALYDRAFT_475032 [Arabidopsis lyrata subsp. lyrata] gi|297332271|gb|EFH62689.1| hypothetical protein ARALYDRAFT_475032 [Arabidopsis lyrata subsp. lyrata]

 Score =  613 bits (1582), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 288/321 (89%), Positives = 308/321 (95%)

Query: 10  AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHE 69
            Y+ PWVEKYRP+KV DIVGN DAV+RL +IARDGNMPNLIL+GPPGTGKTTSILALAHE
Sbjct: 13  GYNNPWVEKYRPSKVVDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHE 72

Query: 70  LLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQ 129
           LLGPNY+EAV+ELNASDDRGIDVVRNKIKMFAQKKVTLPPG+HKVV+LDEADSMT+GAQQ
Sbjct: 73  LLGPNYKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLPPGRHKVVILDEADSMTSGAQQ 132

Query: 130 ALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVP 189
           ALRRT+EIYSNSTRFALACN SSKIIEPIQSRCA+VRFSRLSD++IL RL+VVV+ E VP
Sbjct: 133 ALRRTIEIYSNSTRFALACNTSSKIIEPIQSRCALVRFSRLSDQQILGRLLVVVEAENVP 192

Query: 190 YVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLE 249
           YVPEGLEAIIFTADGDMRQALNNLQAT+SGFRFVNQENVFKVCDQPHPLHVKN+VRNVLE
Sbjct: 193 YVPEGLEAIIFTADGDMRQALNNLQATFSGFRFVNQENVFKVCDQPHPLHVKNIVRNVLE 252

Query: 250 GKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVG 309
            KFDDAC GLKQLYDLGYSPTDIITTLFRIIKNY+MAE+LKLEFMKE GFAHMRICDGVG
Sbjct: 253 SKFDDACHGLKQLYDLGYSPTDIITTLFRIIKNYDMAEYLKLEFMKETGFAHMRICDGVG 312

Query: 310 SYLQLCGLLAKLSIVRETAKA 330
           SYLQLCGLLAKLSI RETAKA
Sbjct: 313 SYLQLCGLLAKLSIARETAKA 333

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356563210|ref|XP_003549857.1| PREDICTED: replication factor C subunit 2-like [Glycine max]

 Score =  613 bits (1581), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 297/332 (89%), Positives = 317/332 (95%), Gaps = 1/332 (0%)

Query: 1   MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKT 60
           M SSSSSS+AYD+PWVEKYRP+KV DIVGN DAV+RL +IARDGNMPNLIL+GPPGTGKT
Sbjct: 1   MTSSSSSSNAYDVPWVEKYRPSKVADIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKT 60

Query: 61  TSILALAHELLG-PNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDE 119
           TSILALAHELLG PN +EAV+ELNASDDRGIDVVRNKIKMFAQKKVTL PG+HK+V+LDE
Sbjct: 61  TSILALAHELLGGPNCKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLTPGRHKIVILDE 120

Query: 120 ADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRL 179
           ADSMT GAQQALRRTMEIYSN+TRFALACN S+KIIEPIQSRCAIVRFSRLSD+EIL RL
Sbjct: 121 ADSMTTGAQQALRRTMEIYSNTTRFALACNTSAKIIEPIQSRCAIVRFSRLSDQEILGRL 180

Query: 180 MVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLH 239
           MVVVQ EKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGF+FVNQ NVFKVCDQPHPLH
Sbjct: 181 MVVVQAEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFQFVNQANVFKVCDQPHPLH 240

Query: 240 VKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGF 299
           VKNMV NV+EG FD+ACSGLKQLYDLGYSPTDIITTLFRIIKNY+MAE+LKLEFMKE GF
Sbjct: 241 VKNMVCNVIEGNFDEACSGLKQLYDLGYSPTDIITTLFRIIKNYDMAEYLKLEFMKETGF 300

Query: 300 AHMRICDGVGSYLQLCGLLAKLSIVRETAKAV 331
           AHMRICDGVGSYLQLCGLLAKLS+VRETAKAV
Sbjct: 301 AHMRICDGVGSYLQLCGLLAKLSLVRETAKAV 332

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357165331|ref|XP_003580347.1| PREDICTED: replication factor C subunit 2-like [Brachypodium distachyon]

 Score =  608 bits (1569), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 281/323 (86%), Positives = 307/323 (95%)

Query: 8   SSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALA 67
           +  YDIPWVEKYRP++V D+VGN DAV+RL +IARDGNMPNLIL+GPPGTGKTTSILALA
Sbjct: 11  TDTYDIPWVEKYRPSRVADVVGNSDAVSRLEVIARDGNMPNLILSGPPGTGKTTSILALA 70

Query: 68  HELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA 127
           HE+LGP+YRE V+ELNASDDRG+DVVRNKIKMFAQKKVTLPPG+HK+V+LDEADSMT GA
Sbjct: 71  HEMLGPSYREGVLELNASDDRGLDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTTGA 130

Query: 128 QQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEK 187
           QQALRRTMEIYSN+TRFALACN SSKIIEPIQSRCAIVRFSRLSD+EIL RLMVVV  EK
Sbjct: 131 QQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMVVVAAEK 190

Query: 188 VPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNV 247
           VPYVPEGLEAIIFTADGDMRQALNNLQAT SGFRFVNQENVFKVCDQPHPLHVKNMV+NV
Sbjct: 191 VPYVPEGLEAIIFTADGDMRQALNNLQATVSGFRFVNQENVFKVCDQPHPLHVKNMVKNV 250

Query: 248 LEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDG 307
           L+GKFD+ACSGLKQLYDLGYSPTDIITTLFR++KNY+MAE+LKLE +KE GFAHMRICDG
Sbjct: 251 LDGKFDEACSGLKQLYDLGYSPTDIITTLFRVVKNYDMAEYLKLELLKETGFAHMRICDG 310

Query: 308 VGSYLQLCGLLAKLSIVRETAKA 330
           VGS+LQL GLLAK +IVRETAKA
Sbjct: 311 VGSFLQLSGLLAKFAIVRETAKA 333

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115459988|ref|NP_001053594.1| Os04g0569000 [Oryza sativa Japonica Group] gi|38344372|emb|CAE02250.2| OSJNBb0032E06.6 [Oryza sativa Japonica Group] gi|113565165|dbj|BAF15508.1| Os04g0569000 [Oryza sativa Japonica Group]

 Score =  607 bits (1565), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 286/332 (86%), Positives = 312/332 (93%), Gaps = 3/332 (0%)

Query: 2   ASSSSS---SSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTG 58
           ASSSS+   + AYDIPWVEKYRPT+V D+ GN DAVARL  IARDGNMPNLIL+GPPGTG
Sbjct: 3   ASSSSAPDLADAYDIPWVEKYRPTRVADVGGNSDAVARLQDIARDGNMPNLILSGPPGTG 62

Query: 59  KTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLD 118
           KTTSIL+LAHELLGP+YREAV+ELNASDDRG+DVVRNKIKMFAQKKVTL PG+HK+V+LD
Sbjct: 63  KTTSILSLAHELLGPSYREAVLELNASDDRGLDVVRNKIKMFAQKKVTLQPGRHKIVILD 122

Query: 119 EADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSR 178
           EADSMT+GAQQALRRTMEIYSN+TRFALACN SSKIIEPIQSRCAIVRFSRLSD+EIL R
Sbjct: 123 EADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGR 182

Query: 179 LMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPL 238
           LM+VV  EKVPYVPEGLEAIIFTADGDMRQALNNLQAT SGFRFVNQENVFKVCDQPHPL
Sbjct: 183 LMIVVAAEKVPYVPEGLEAIIFTADGDMRQALNNLQATVSGFRFVNQENVFKVCDQPHPL 242

Query: 239 HVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAG 298
           HVKNMV+NVL+GKFD+ACS LKQLYDLGYSPTDIITTLFR+IKNY+MAE+LKLE +KE G
Sbjct: 243 HVKNMVKNVLDGKFDEACSALKQLYDLGYSPTDIITTLFRVIKNYDMAEYLKLELLKETG 302

Query: 299 FAHMRICDGVGSYLQLCGLLAKLSIVRETAKA 330
           FAHMRICDGVGS+LQL GLLAK ++VRETAKA
Sbjct: 303 FAHMRICDGVGSFLQLSGLLAKFALVRETAKA 334

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	331
TAIR|locus:2015233	333	RFC2 "replication factor C 2"	0.966	0.960	0.893	1.5e-152
UNIPROTKB|P53033	359	RFC2 "Replication factor C sub	0.939	0.866	0.665	1.2e-115
RGD|621198	349	Rfc2 "replication factor C (ac	0.939	0.891	0.668	1.9e-115
UNIPROTKB|F6ULR2	364	RFC2 "Uncharacterized protein"	0.939	0.854	0.665	3.1e-115
UNIPROTKB|P35250	354	RFC2 "Replication factor C sub	0.939	0.878	0.672	3.1e-115
UNIPROTKB|Q05B83	352	RFC2 "Replication factor C sub	0.939	0.883	0.675	5e-115
MGI|MGI:1341868	349	Rfc2 "replication factor C (ac	0.939	0.891	0.665	5e-115
ZFIN|ZDB-GENE-050306-29	384	rfc2 "replication factor C (ac	0.957	0.825	0.648	5.9e-112
UNIPROTKB|E2QSU1	316	RFC2 "Uncharacterized protein"	0.861	0.901	0.673	1.5e-106
UNIPROTKB|I3LHX6	295	RFC2 "Uncharacterized protein"	0.861	0.966	0.677	3.6e-105

TAIR|locus:2015233 RFC2 "replication factor C 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1488 (528.9 bits), Expect = 1.5e-152, P = 1.5e-152
 Identities = 286/320 (89%), Positives = 306/320 (95%)

Query:    11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
             Y+ PWVEKYRP+KV DIVGN DAV+RL +IARDGNMPNLIL+GPPGTGKTTSILALAHEL
Sbjct:    13 YNEPWVEKYRPSKVVDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL 72

Query:    71 LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
             LG NY+EAV+ELNASDDRGIDVVRNKIKMFAQKKVTLPPG+HKVV+LDEADSMT+GAQQA
Sbjct:    73 LGTNYKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLPPGRHKVVILDEADSMTSGAQQA 132

Query:   131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
             LRRT+EIYSNSTRFALACN S+KIIEPIQSRCA+VRFSRLSD++IL RL+VVV  EKVPY
Sbjct:   133 LRRTIEIYSNSTRFALACNTSAKIIEPIQSRCALVRFSRLSDQQILGRLLVVVAAEKVPY 192

Query:   191 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG 250
             VPEGLEAIIFTADGDMRQALNNLQAT+SGF FVNQENVFKVCDQPHPLHVKN+VRNVLE 
Sbjct:   193 VPEGLEAIIFTADGDMRQALNNLQATFSGFSFVNQENVFKVCDQPHPLHVKNIVRNVLES 252

Query:   251 KFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
             KFD AC GLKQLYDLGYSPTDIITTLFRIIKNY+MAE+LKLEFMKE GFAHMRICDGVGS
Sbjct:   253 KFDIACDGLKQLYDLGYSPTDIITTLFRIIKNYDMAEYLKLEFMKETGFAHMRICDGVGS 312

Query:   311 YLQLCGLLAKLSIVRETAKA 330
             YLQLCGLLAKLSIVRETAKA
Sbjct:   313 YLQLCGLLAKLSIVRETAKA 332

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0005663 "DNA replication factor C complex" evidence=ISS

GO:0006260 "DNA replication" evidence=IEA

GO:0016887 "ATPase activity" evidence=ISS

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

UNIPROTKB|P53033 RFC2 "Replication factor C subunit 2" [Gallus gallus (taxid:9031)]

 Score = 1140 (406.4 bits), Expect = 1.2e-115, P = 1.2e-115
 Identities = 207/311 (66%), Positives = 263/311 (84%)

Query:    11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
             Y++PWVEKYRP K+C++VGN D V+RL + A++GN+PN+I+AGPPGTGKTTSIL LA  L
Sbjct:    39 YELPWVEKYRPLKLCEVVGNEDTVSRLEVFAKEGNVPNIIIAGPPGTGKTTSILCLARAL 98

Query:    71 LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
             LGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT GAQQA
Sbjct:    99 LGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMTDGAQQA 158

Query:   131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
             LRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D +IL+RL+ +V++E VPY
Sbjct:   159 LRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDSQILARLLKIVEKEDVPY 218

Query:   191 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG 250
               +GLEAIIFTA GDMRQALNNLQ+TYSGF F+N ENVFKVCD+PHPL VK M+++ +  
Sbjct:   219 TDDGLEAIIFTAQGDMRQALNNLQSTYSGFGFINSENVFKVCDEPHPLLVKEMIQHCINA 278

Query:   251 KFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
               D+A   L  L+ LGYSP D+I  +FR+ K ++M E+LKLEF+KE G+ HM+I +GV S
Sbjct:   279 NIDEAYKILAHLWRLGYSPEDVIGNIFRVCKTFQMPEYLKLEFIKEIGYTHMKIAEGVNS 338

Query:   311 YLQLCGLLAKL 321
              LQ+ GLLA+L
Sbjct:   339 LLQMAGLLARL 349

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=IEA

GO:0000724 "double-strand break repair via homologous recombination" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006281 "DNA repair" evidence=TAS

GO:0006302 "double-strand break repair" evidence=TAS

RGD|621198 Rfc2 "replication factor C (activator 1) 2" [Rattus norvegicus (taxid:10116)]

 Score = 1138 (405.7 bits), Expect = 1.9e-115, P = 1.9e-115
 Identities = 208/311 (66%), Positives = 264/311 (84%)

Query:    11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
             Y++PWVEKYRP K+ +IVGN D V+RL + AR+GN+PN+I+AGPPGTGKTTSIL LA  L
Sbjct:    29 YELPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARAL 88

Query:    71 LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
             LGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT GAQQA
Sbjct:    89 LGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMTDGAQQA 148

Query:   131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
             LRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D ++LSRLM V+++EKVPY
Sbjct:   149 LRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQVLSRLMNVIEKEKVPY 208

Query:   191 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG 250
               +GLEAIIFTA GDMRQALNNLQ+T+SGF ++N ENVFKVCD+PHPL VK M+++ ++ 
Sbjct:   209 TDDGLEAIIFTAQGDMRQALNNLQSTFSGFGYINSENVFKVCDEPHPLLVKEMIQHCVDA 268

Query:   251 KFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
               D+A   L  L+ LGYSP D+I  +FR+ K + MAE+LKLEF+KE G+ HM++ +GV S
Sbjct:   269 NIDEAYKILAHLWHLGYSPEDVIGNIFRVCKTFPMAEYLKLEFIKEIGYTHMKVAEGVNS 328

Query:   311 YLQLCGLLAKL 321
              LQ+ GLLA+L
Sbjct:   329 LLQMAGLLARL 339

GO:0003674 "molecular_function" evidence=ND

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=IEA;ISO

GO:0006260 "DNA replication" evidence=IEA

GO:0008150 "biological_process" evidence=ND

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

UNIPROTKB|F6ULR2 RFC2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 1136 (405.0 bits), Expect = 3.1e-115, P = 3.1e-115
 Identities = 207/311 (66%), Positives = 264/311 (84%)

Query:    11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
             Y++PWVEKYRP K+ +IVGN D V+RL + A++GN+PN+I+AGPPGTGKTTSIL LA  L
Sbjct:    44 YELPWVEKYRPVKLNEIVGNEDTVSRLEVFAKEGNVPNIIIAGPPGTGKTTSILCLARAL 103

Query:    71 LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
             LGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT GAQQA
Sbjct:   104 LGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMTDGAQQA 163

Query:   131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
             LRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++LSD ++L+RL+ V+++EKVPY
Sbjct:   164 LRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLSDAQVLARLLTVLEQEKVPY 223

Query:   191 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG 250
               +GLEA+IFTA GDMRQALNN+Q+T+SGF F+N ENVFKVCD+PHPL VK M+++ +  
Sbjct:   224 TDDGLEAVIFTAQGDMRQALNNVQSTFSGFGFINSENVFKVCDEPHPLLVKEMIQHCVNA 283

Query:   251 KFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
               D+A   L  L+ LGYSP DII  +FR+ K ++MAE+LKLEF+KE G+ HM+I +GV S
Sbjct:   284 NIDEAYKILAHLWHLGYSPEDIIGNIFRVCKTFQMAEYLKLEFIKEIGYTHMKIAEGVNS 343

Query:   311 YLQLCGLLAKL 321
              LQ+ GLLA+L
Sbjct:   344 LLQMAGLLARL 354

GO:0005524 "ATP binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|P35250 RFC2 "Replication factor C subunit 2" [Homo sapiens (taxid:9606)]

 Score = 1136 (405.0 bits), Expect = 3.1e-115, P = 3.1e-115
 Identities = 209/311 (67%), Positives = 264/311 (84%)

Query:    11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
             Y++PWVEKYRP K+ +IVGN D V+RL + AR+GN+PN+I+AGPPGTGKTTSIL LA  L
Sbjct:    34 YELPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARAL 93

Query:    71 LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
             LGP  ++A++ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT GAQQA
Sbjct:    94 LGPALKDAMLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMTDGAQQA 153

Query:   131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
             LRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D +IL+RLM V+++E+VPY
Sbjct:   154 LRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPY 213

Query:   191 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG 250
               +GLEAIIFTA GDMRQALNNLQ+T+SGF F+N ENVFKVCD+PHPL VK M+++ +  
Sbjct:   214 TDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFINSENVFKVCDEPHPLLVKEMIQHCVNA 273

Query:   251 KFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
               D+A   L  L+ LGYSP DII  +FR+ K ++MAE+LKLEF+KE G+ HM+I +GV S
Sbjct:   274 NIDEAYKILAHLWHLGYSPEDIIGNIFRVCKTFQMAEYLKLEFIKEIGYTHMKIAEGVNS 333

Query:   311 YLQLCGLLAKL 321
              LQ+ GLLA+L
Sbjct:   334 LLQMAGLLARL 344

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=IDA

GO:0000075 "cell cycle checkpoint" evidence=TAS

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

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0000722 "telomere maintenance via recombination" evidence=TAS

GO:0000723 "telomere maintenance" 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:0006281 "DNA repair" evidence=TAS

GO:0006283 "transcription-coupled nucleotide-excision repair" evidence=TAS

GO:0006289 "nucleotide-excision repair" evidence=TAS

GO:0006297 "nucleotide-excision repair, DNA gap filling" evidence=TAS

GO:0032201 "telomere maintenance via semi-conservative replication" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q05B83 RFC2 "Replication factor C subunit 2" [Bos taurus (taxid:9913)]

 Score = 1134 (404.2 bits), Expect = 5.0e-115, P = 5.0e-115
 Identities = 210/311 (67%), Positives = 263/311 (84%)

Query:    11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
             Y++PWVEKYRP K+ +IVGN D V+RL + AR+GN+PN+I+AGPPGTGKTTSIL LA  L
Sbjct:    32 YELPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARAL 91

Query:    71 LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
             LGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT GAQQA
Sbjct:    92 LGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMTDGAQQA 151

Query:   131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
             LRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D +IL+RL+ V+++EKV Y
Sbjct:   152 LRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDMQILARLLSVIEKEKVQY 211

Query:   191 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG 250
               +GLEAIIFTA GDMRQALNNLQ+TYSGF F+N ENVFKVCD+PHPL VK M+++ +  
Sbjct:   212 TDDGLEAIIFTAQGDMRQALNNLQSTYSGFGFINSENVFKVCDEPHPLLVKEMIQHCVSA 271

Query:   251 KFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
               D+A   L  L+ LGYSP DII  +FR+ K ++MAE+LKLEF+KE G+ HM+I +GV S
Sbjct:   272 DIDEAYKILAHLWHLGYSPEDIIGNIFRVCKTFQMAEYLKLEFIKEIGYTHMKIAEGVNS 331

Query:   311 YLQLCGLLAKL 321
              LQ+ GLLA+L
Sbjct:   332 LLQMAGLLARL 342

GO:0005524 "ATP binding" evidence=IEA

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

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

MGI|MGI:1341868 Rfc2 "replication factor C (activator 1) 2" [Mus musculus (taxid:10090)]

 Score = 1134 (404.2 bits), Expect = 5.0e-115, P = 5.0e-115
 Identities = 207/311 (66%), Positives = 264/311 (84%)

Query:    11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
             Y++PWVEKYRP K+ +IVGN D V+RL + AR+GN+PN+I+AGPPGTGKTTSIL LA  L
Sbjct:    29 YELPWVEKYRPLKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARAL 88

Query:    71 LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
             LGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT GAQQA
Sbjct:    89 LGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMTDGAQQA 148

Query:   131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
             LRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++L+D ++L+RLM V+++EKVPY
Sbjct:   149 LRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQVLTRLMNVIEKEKVPY 208

Query:   191 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG 250
               +GLEAIIFTA GDMRQALNNLQ+T+SGF ++N ENVFKVCD+PHPL VK M+++ ++ 
Sbjct:   209 TDDGLEAIIFTAQGDMRQALNNLQSTFSGFGYINSENVFKVCDEPHPLLVKEMIQHCVDA 268

Query:   251 KFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
               D+A   L  L+ LGYSP D+I  +FR+ K + MAE+LKLEF+KE G+ HM++ +GV S
Sbjct:   269 NIDEAYKILAHLWHLGYSPEDVIGNIFRVCKTFPMAEYLKLEFIKEIGYTHMKVAEGVNS 328

Query:   311 YLQLCGLLAKL 321
              LQ+ GLLA+L
Sbjct:   329 LLQMAGLLARL 339

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005663 "DNA replication factor C complex" evidence=ISO

GO:0006260 "DNA replication" evidence=IEA

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

ZFIN|ZDB-GENE-050306-29 rfc2 "replication factor C (activator 1) 2" [Danio rerio (taxid:7955)]

 Score = 1105 (394.0 bits), Expect = 5.9e-112, P = 5.9e-112
 Identities = 207/319 (64%), Positives = 264/319 (82%)

Query:    10 AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHE 69
             AY++PWVEKYRP K+ +IVGN + V+RL + AR+GN+PN+I+AGPPGTGKTTSIL LA  
Sbjct:    63 AYELPWVEKYRPLKLNEIVGNEETVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARA 122

Query:    70 LLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQ 129
             LLGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT GAQQ
Sbjct:   123 LLGPAMKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMTDGAQQ 182

Query:   130 ALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVP 189
             ALRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+S+L DE+I+ RL  VV++E + 
Sbjct:   183 ALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYSKLRDEQIMMRLTEVVEKENLH 242

Query:   190 YVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLE 249
                +GLEAIIFTA GDMRQALNNLQ+T SGF ++N ENVFKVCD+PHPL VK+M+ + + 
Sbjct:   243 VTNDGLEAIIFTAQGDMRQALNNLQSTNSGFGYINSENVFKVCDEPHPLLVKSMLEHCVN 302

Query:   250 GKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVG 309
                D+A   ++QL+ LGYSP DII  +FR+ K ++MAE+LKLE++KE G+ HM++ +GV 
Sbjct:   303 ANIDEAYKIIEQLWSLGYSPEDIIGNIFRVCKTFQMAEYLKLEYIKEIGYTHMKVAEGVN 362

Query:   310 SYLQLCGLLAKLSIVRETA 328
             S LQ+ GLL +L   R+TA
Sbjct:   363 SLLQMAGLLGRLC--RKTA 379

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006260 "DNA replication" evidence=IEA

UNIPROTKB|E2QSU1 RFC2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 1054 (376.1 bits), Expect = 1.5e-106, P = 1.5e-106
 Identities = 192/285 (67%), Positives = 244/285 (85%)

Query:    11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
             Y++PWVEKYRP K+ +IVGN D V+RL + A++GN+PN+I+AGPPGTGKTTSIL LA  L
Sbjct:    32 YELPWVEKYRPVKLNEIVGNEDTVSRLEVFAKEGNVPNIIIAGPPGTGKTTSILCLARAL 91

Query:    71 LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
             LGP  ++AV+ELNAS+DRGIDVVRNKIKMFAQ+KVTLP G+HK+++LDEADSMT GAQQA
Sbjct:    92 LGPALKDAVLELNASNDRGIDVVRNKIKMFAQQKVTLPKGRHKIIILDEADSMTDGAQQA 151

Query:   131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
             LRRTMEIYS +TRFALACN S KIIEPIQSRCA++R+++LSD ++L+RL+ V+++EKVPY
Sbjct:   152 LRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLSDAQVLARLLTVLEQEKVPY 211

Query:   191 VPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG 250
               +GLEA+IFTA GDMRQALNN+Q+T+SGF F+N ENVFKVCD+PHPL VK M+++ +  
Sbjct:   212 TDDGLEAVIFTAQGDMRQALNNVQSTFSGFGFINSENVFKVCDEPHPLLVKEMIQHCVNA 271

Query:   251 KFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMK 295
               D+A   L  L+ LGYSP DII  +FR+ K ++MAE+LKLEF+K
Sbjct:   272 NIDEAYKILAHLWHLGYSPEDIIGNIFRVCKTFQMAEYLKLEFIK 316

GO:0005663 "DNA replication factor C complex" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|I3LHX6 RFC2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 1041 (371.5 bits), Expect = 3.6e-105, P = 3.6e-105
 Identities = 193/285 (67%), Positives = 242/285 (84%)

Query:    37 LGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNK 96
             L + AR+GN+PN+I+AGPPGTGKTTSIL LA  LLGP  ++AV+ELNAS+DRGIDVVRNK
Sbjct:     1 LQVFAREGNVPNIIIAGPPGTGKTTSILCLARALLGPALKDAVLELNASNDRGIDVVRNK 60

Query:    97 IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIE 156
             IKMFAQ+KVTLP G+HK+++LDEADSMT GAQQALRRTMEIYS +TRFALACN S KIIE
Sbjct:    61 IKMFAQQKVTLPKGRHKIIILDEADSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIE 120

Query:   157 PIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT 216
             PIQSRCA++R+++L+D +IL+RL+ V+++EKVPY  +GLEAIIFTA GDMRQALNNLQ+T
Sbjct:   121 PIQSRCAVLRYTKLTDAQILARLLNVIEKEKVPYTDDGLEAIIFTAQGDMRQALNNLQST 180

Query:   217 YSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTL 276
             +SGF F+N ENVFKVCD+PHPL VK M+++ +    D+A   L  L+ LGYSP DII  +
Sbjct:   181 FSGFGFINSENVFKVCDEPHPLLVKEMIQHCVSANIDEAYKILAHLWHLGYSPEDIIGNI 240

Query:   277 FRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKL 321
             FR+ K ++MAE+LKLEF+KE G+ HMR+ +GV S LQ+ GLLA+L
Sbjct:   241 FRVCKTFQMAEYLKLEFIKEIGYTHMRVAEGVNSLLQMAGLLARL 285

GO:0005663 "DNA replication factor C complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0006260 "DNA replication" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P35250	RFC2_HUMAN	No assigned EC number	0.6542	0.9697	0.9067	yes	no
B0R7H7	RFCS_HALS3	No assigned EC number	0.4161	0.9274	0.9534	yes	no
A1RV38	RFCS2_PYRIL	No assigned EC number	0.4018	0.9184	0.95	yes	no
Q5UZE5	RFCS_HALMA	No assigned EC number	0.3894	0.9607	0.9784	yes	no
A6US36	RFCS_METVS	No assigned EC number	0.4294	0.9365	0.9841	yes	no
Q9WUK4	RFC2_MOUSE	No assigned EC number	0.6561	0.9577	0.9083	yes	no
A7I8Y0	RFCS_METB6	No assigned EC number	0.4032	0.9184	0.9440	yes	no
O26343	RFCS_METTH	No assigned EC number	0.4089	0.9244	0.9532	yes	no
Q6L1I0	RFCS_PICTO	No assigned EC number	0.4083	0.9305	0.9685	yes	no
Q8ZWS2	RFCS2_PYRAE	No assigned EC number	0.4171	0.9395	0.9749	yes	no
O28219	RFCS_ARCFU	No assigned EC number	0.4185	0.9274	0.9623	yes	no
A9A6K6	RFCS_METM6	No assigned EC number	0.4394	0.9305	0.9777	yes	no
A4WLY0	RFCS2_PYRAR	No assigned EC number	0.4177	0.9184	0.9440	yes	no
Q2NH89	RFCS_METST	No assigned EC number	0.4055	0.9365	0.9657	yes	no
Q8PVY4	RFCS_METMA	No assigned EC number	0.4054	0.9274	0.9082	yes	no
Q2FQT9	RFCS_METHJ	No assigned EC number	0.3967	0.9184	0.9411	yes	no
O94449	RFC4_SCHPO	No assigned EC number	0.6037	0.9577	0.9269	yes	no
Q9HN27	RFCS_HALSA	No assigned EC number	0.4161	0.9274	0.9534	yes	no
Q4JAB0	RFCS_SULAC	No assigned EC number	0.4603	0.9365	0.9538	yes	no
A4FZ74	RFCS_METM5	No assigned EC number	0.4358	0.9365	0.9841	yes	no
Q9UXF5	RFCS_SULSO	No assigned EC number	0.4720	0.9456	0.9484	yes	no
Q8SQM0	RFC4_ENCCU	No assigned EC number	0.4290	0.8882	0.9514	yes	no
A2SQT3	RFCS_METLZ	No assigned EC number	0.4045	0.9244	0.9532	yes	no
Q3ITJ2	RFCS_NATPD	No assigned EC number	0.4217	0.8791	0.8953	yes	no
Q977Z9	RFCS_THEVO	No assigned EC number	0.3851	0.9244	0.9622	yes	no
Q8TSX5	RFCS_METAC	No assigned EC number	0.4085	0.9274	0.9082	yes	no
P53033	RFC2_CHICK	No assigned EC number	0.6510	0.9697	0.8941	yes	no
P40339	RFC4_YEAST	No assigned EC number	0.6163	0.9456	0.9690	yes	no
Q9HI47	RFCS_THEAC	No assigned EC number	0.3954	0.9184	0.9559	yes	no
P53034	RFC2_DROME	No assigned EC number	0.6210	0.9486	0.9486	yes	no
A6VJ61	RFCS_METM7	No assigned EC number	0.4363	0.9305	0.9777	yes	no
Q0W037	RFCS_UNCMA	No assigned EC number	0.3936	0.9456	0.9720	yes	no
A5UMF3	RFCS_METS3	No assigned EC number	0.4057	0.9244	0.9714	yes	no
P60374	RFCS_NANEQ	No assigned EC number	0.4012	0.9093	0.9347	yes	no
A3CUX9	RFCS_METMJ	No assigned EC number	0.3865	0.9395	0.9658	yes	no
Q46C63	RFCS_METBF	No assigned EC number	0.3969	0.9184	0.9101	yes	no
Q6M044	RFCS_METMP	No assigned EC number	0.4326	0.9365	0.9841	yes	no
Q54E21	RFC2_DICDI	No assigned EC number	0.6421	0.9425	0.9230	yes	no
Q9YBS7	RFCS_AERPE	No assigned EC number	0.4485	0.9486	0.9661	yes	no
Q641W4	RFC2_RAT	No assigned EC number	0.6593	0.9577	0.9083	yes	no
Q975D3	RFCS_SULTO	No assigned EC number	0.4781	0.9395	0.9510	yes	no
Q05B83	RFC2_BOVIN	No assigned EC number	0.6593	0.9667	0.9090	yes	no
A1RWU7	RFCS_THEPD	No assigned EC number	0.4437	0.9395	0.9569	yes	no
A3DNV9	RFCS_STAMF	No assigned EC number	0.4447	0.9577	0.9635	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_fgenesh4_pg.C_LG_III1005	replication factor C subunit (331 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	estExt_Genewise1_v1.C_LG_I1046	proliferating cell nuclear antigen (PCNA); This protein is an auxiliary protein of DNA polymera [...] (268 aa)				•	•	•	•		0.888
	estExt_Genewise1_v1.C_LG_IX3930	proliferating cell nuclear antigen (PCNA); This protein is an auxiliary protein of DNA polymera [...] (265 aa)				•	•	•	•		0.879
	estExt_fgenesh4_pg.C_LG_XIX0457	hypothetical protein (353 aa)			•	•	•	•	•	•	0.871
	gw1.V.2541.1	hypothetical protein (1081 aa)				•		•	•		0.833
	gw1.IX.5004.1	hypothetical protein (664 aa)				•	•		•		0.807
	grail3.0002016201	hypothetical protein (343 aa)			•	•	•	•	•	•	0.720
	estExt_fgenesh4_pg.C_LG_II0728	hypothetical protein (363 aa)			•	•	•	•	•	•	0.710
	gw1.XIII.413.1	annotation not avaliable (325 aa)				•	•		•		0.704
	eugene3.00660007	hypothetical protein (2222 aa)				•		•	•		0.630
	estExt_fgenesh4_pg.C_6730003	hypothetical protein (289 aa)			•	•	•	•	•	•	0.576

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	331
PLN03025	319	PLN03025, PLN03025, replication factor C subunit;	0.0
PRK00440	319	PRK00440, rfc, replication factor C small subunit;	1e-126
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	7e-76
PRK12402	337	PRK12402, PRK12402, replication factor C small sub	1e-61
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	4e-40
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-38
PRK14953	486	PRK14953, PRK14953, DNA polymerase III subunits ga	2e-30
pfam08542	89	pfam08542, Rep_fac_C, Replication factor C C-termi	2e-28
COG2812	515	COG2812, DnaX, DNA polymerase III, gamma/tau subun	5e-28
COG0470	230	COG0470, HolB, ATPase involved in DNA replication	1e-24
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	4e-24
TIGR02397	355	TIGR02397, dnaX_nterm, DNA polymerase III, subunit	4e-23
PRK14962	472	PRK14962, PRK14962, DNA polymerase III subunits ga	3e-22
PRK14970	367	PRK14970, PRK14970, DNA polymerase III subunits ga	4e-21
PRK14963	504	PRK14963, PRK14963, DNA polymerase III subunits ga	8e-21
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	3e-20
PRK07133	725	PRK07133, PRK07133, DNA polymerase III subunits ga	6e-20
PRK05896	605	PRK05896, PRK05896, DNA polymerase III subunits ga	6e-18
PRK06645	507	PRK06645, PRK06645, DNA polymerase III subunits ga	1e-16
PRK14971	614	PRK14971, PRK14971, DNA polymerase III subunits ga	2e-16
PRK14950	585	PRK14950, PRK14950, DNA polymerase III subunits ga	4e-15
TIGR00678	188	TIGR00678, holB, DNA polymerase III, delta' subuni	7e-15
PRK14964	491	PRK14964, PRK14964, DNA polymerase III subunits ga	4e-14
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	4e-14
PRK08691	709	PRK08691, PRK08691, DNA polymerase III subunits ga	6e-13
PRK14959	624	PRK14959, PRK14959, DNA polymerase III subunits ga	6e-12
PRK06305	451	PRK06305, PRK06305, DNA polymerase III subunits ga	1e-11
PRK05564	313	PRK05564, PRK05564, DNA polymerase III subunit del	2e-11
PRK14956	484	PRK14956, PRK14956, DNA polymerase III subunits ga	2e-11
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	3e-11
PRK05563	559	PRK05563, PRK05563, DNA polymerase III subunits ga	5e-11
PRK14965	576	PRK14965, PRK14965, DNA polymerase III subunits ga	5e-11
pfam13177	161	pfam13177, DNA_pol3_delta2, DNA polymerase III, de	6e-11
PRK09112	351	PRK09112, PRK09112, DNA polymerase III subunit del	9e-11
PRK04132	846	PRK04132, PRK04132, replication factor C small sub	1e-10
PRK08451	535	PRK08451, PRK08451, DNA polymerase III subunits ga	2e-10
PRK06647	563	PRK06647, PRK06647, DNA polymerase III subunits ga	3e-10
smart00382	148	smart00382, AAA, ATPases associated with a variety	5e-09
PRK14961	363	PRK14961, PRK14961, DNA polymerase III subunits ga	6e-09
PRK07399	314	PRK07399, PRK07399, DNA polymerase III subunit del	3e-08
PRK14955	397	PRK14955, PRK14955, DNA polymerase III subunits ga	4e-08
PRK14969	527	PRK14969, PRK14969, DNA polymerase III subunits ga	7e-08
PRK14954	620	PRK14954, PRK14954, DNA polymerase III subunits ga	7e-08
PRK12323	700	PRK12323, PRK12323, DNA polymerase III subunits ga	8e-08
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	1e-07
PRK07003	830	PRK07003, PRK07003, DNA polymerase III subunits ga	1e-07
PRK14948	620	PRK14948, PRK14948, DNA polymerase III subunits ga	1e-07
PRK14957	546	PRK14957, PRK14957, DNA polymerase III subunits ga	2e-07
PRK06871	325	PRK06871, PRK06871, DNA polymerase III subunit del	3e-07
PRK14951	618	PRK14951, PRK14951, DNA polymerase III subunits ga	1e-06
PRK08058	329	PRK08058, PRK08058, DNA polymerase III subunit del	7e-06
pfam13401	124	pfam13401, AAA_22, AAA domain	9e-06
PRK08769	319	PRK08769, PRK08769, DNA polymerase III subunit del	1e-05
PRK08699	325	PRK08699, PRK08699, DNA polymerase III subunit del	1e-05
PRK14958	509	PRK14958, PRK14958, DNA polymerase III subunits ga	3e-05
TIGR00602	637	TIGR00602, rad24, checkpoint protein rad24	3e-05
pfam03215	490	pfam03215, Rad17, Rad17 cell cycle checkpoint prot	4e-05
PRK14952	584	PRK14952, PRK14952, DNA polymerase III subunits ga	1e-04
PRK07471	365	PRK07471, PRK07471, DNA polymerase III subunit del	1e-04
PRK14960	702	PRK14960, PRK14960, DNA polymerase III subunits ga	2e-04
pfam13173	127	pfam13173, AAA_14, AAA domain	5e-04
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	7e-04
PRK06090	319	PRK06090, PRK06090, DNA polymerase III subunit del	0.003

>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional

 Score =  686 bits (1771), Expect = 0.0
 Identities = 278/318 (87%), Positives = 302/318 (94%)

Query: 13  IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG 72
           +PWVEKYRPTK+ DIVGN DAV+RL +IARDGNMPNLIL+GPPGTGKTTSILALAHELLG
Sbjct: 1   LPWVEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG 60

Query: 73  PNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALR 132
           PNY+EAV+ELNASDDRGIDVVRNKIKMFAQKKVTLPPG+HK+V+LDEADSMT+GAQQALR
Sbjct: 61  PNYKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALR 120

Query: 133 RTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVP 192
           RTMEIYSN+TRFALACN SSKIIEPIQSRCAIVRFSRLSD+EIL RLM VV+ EKVPYVP
Sbjct: 121 RTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEAEKVPYVP 180

Query: 193 EGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKF 252
           EGLEAIIFTADGDMRQALNNLQAT+SGF FVNQENVFKVCDQPHPLHVKN+VRN L+GKF
Sbjct: 181 EGLEAIIFTADGDMRQALNNLQATHSGFGFVNQENVFKVCDQPHPLHVKNIVRNCLKGKF 240

Query: 253 DDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYL 312
           DDAC GLKQLYDLGYSPTDIITTLFR++KNY+M E LKLE+++E GFAHMRICDGVGS L
Sbjct: 241 DDACDGLKQLYDLGYSPTDIITTLFRVVKNYDMPEFLKLEYLREIGFAHMRICDGVGSLL 300

Query: 313 QLCGLLAKLSIVRETAKA 330
           QL GLLAKL +VRETAKA
Sbjct: 301 QLSGLLAKLCLVRETAKA 318

Length = 319

>gnl|CDD|234763 PRK00440, rfc, replication factor C small subunit; Reviewed

 Score =  363 bits (934), Expect = e-126
 Identities = 150/318 (47%), Positives = 208/318 (65%), Gaps = 6/318 (1%)

Query: 12  DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL 71
           +  WVEKYRP  + +IVG  + V RL    ++ NMP+L+ AGPPGTGKTT+ LALA EL 
Sbjct: 4   EEIWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY 63

Query: 72  GPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGK--HKVVVLDEADSMTAGAQQ 129
           G ++RE  +ELNASD+RGIDV+RNKIK FA+   T P G    K++ LDEAD++T+ AQQ
Sbjct: 64  GEDWRENFLELNASDERGIDVIRNKIKEFAR---TAPVGGAPFKIIFLDEADNLTSDAQQ 120

Query: 130 ALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVP 189
           ALRRTME+YS +TRF L+CN SSKII+PIQSRCA+ RFS L  E +  RL  + + E + 
Sbjct: 121 ALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGIE 180

Query: 190 YVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLE 249
              + LEAI + ++GDMR+A+N LQA  +  + V +E V+K+     P  ++ M+   L 
Sbjct: 181 ITDDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIREMIELALN 240

Query: 250 GKFDDACSGLKQL-YDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGV 308
           G F +A   L+ L  D G S  DII  + R + + ++ E LK+E +   G A  RI +G 
Sbjct: 241 GDFTEAREKLRDLMIDYGLSGEDIIKQIHREVWSLDIPEELKVELIDAIGEADFRITEGA 300

Query: 309 GSYLQLCGLLAKLSIVRE 326
              +QL  LLAKL+++ +
Sbjct: 301 NERIQLEALLAKLALLGK 318

Length = 319

>gnl|CDD|235223 PRK04132, PRK04132, replication factor C small subunit; Provisional

 Score =  248 bits (635), Expect = 7e-76
 Identities = 122/284 (42%), Positives = 176/284 (61%), Gaps = 13/284 (4%)

Query: 44  GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK 103
           GN+P ++         TT+ LALA EL G N+R   +ELNASD+RGI+V+R K+K FA+ 
Sbjct: 571 GNLPTVL-------HNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFART 623

Query: 104 KVTLPPG--KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSR 161
           K   P G    K++ LDEAD++T  AQQALRRTME++S++ RF L+CN SSKIIEPIQSR
Sbjct: 624 K---PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR 680

Query: 162 CAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFR 221
           CAI RF  L DE+I  RL  + + E +    EGL+AI++ A+GDMR+A+N LQA  +   
Sbjct: 681 CAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALDD 740

Query: 222 FVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQ-LYDLGYSPTDIITTLFRII 280
            +  ENVF V  +  P  ++ M+   L+G F  A   L++ L   G S  D++  + R +
Sbjct: 741 KITDENVFLVASRARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHREV 800

Query: 281 KNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV 324
            N  + E  K+E   + G  + R+ +G    +QL  LLA+ +++
Sbjct: 801 FNLPIDEPKKVELADKIGEYNFRLVEGANEMIQLEALLAQFTLM 844

Length = 846

>gnl|CDD|237090 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed

 Score =  199 bits (507), Expect = 1e-61
 Identities = 109/337 (32%), Positives = 163/337 (48%), Gaps = 33/337 (9%)

Query: 15  WVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN 74
           W EKYRP  + DI+G  + V RL       N+P+L++ GPPG+GKT ++ ALA EL G  
Sbjct: 5   WTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDP 64

Query: 75  YREAVMELNASD--DRGIDVVRN-----------------KIKMFAQKKV-----TLPP- 109
           +     E N +D  D+G   +                   KI  F  K V     +  P 
Sbjct: 65  WENNFTEFNVADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNF--KHVLKEYASYRPL 122

Query: 110 -GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFS 168
              +K ++LD A+++   AQQALRR ME YS + RF +A    SK+I PI+SRC  + F 
Sbjct: 123 SADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLFFR 182

Query: 169 RLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENV 228
             +D+E++  L  + + E V Y  +GLE I + A GD+R+A+  LQ        +  E  
Sbjct: 183 APTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEITMEAA 242

Query: 229 FKVC-DQPHPLHVKNMVRNVLEGKFDDACSGLKQL-YDLGYSPTDIITTLFRI-IKNYEM 285
           ++   D      +++++     G F DA   L  L  D G S  +++  L R+    Y  
Sbjct: 243 YEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEELLRVARSRYRG 302

Query: 286 AEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLS 322
               +L   + A  A  R+ DG    +QL  LLA+L 
Sbjct: 303 DNLARL--HRLAADADARLTDGANDRIQLEALLAELG 337

Length = 337

>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional

 Score =  142 bits (361), Expect = 4e-40
 Identities = 71/209 (33%), Positives = 109/209 (52%), Gaps = 17/209 (8%)

Query: 15  WVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHELLGP 73
           W +KYRP+ + + +           I + G +PN++L +  PGTGKTT   AL +E+   
Sbjct: 11  WEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV--- 67

Query: 74  NYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEAD-SMTAGAQQALR 132
                V+ +N SD R ID VRN++  FA   V+L  G  KV+++DE D    A AQ+ LR
Sbjct: 68  GAE--VLFVNGSDCR-IDFVRNRLTRFAST-VSLT-GGGKVIIIDEFDRLGLADAQRHLR 122

Query: 133 RTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILS-------RLMVVVQE 185
             ME YS +  F +  N  + IIEP++SRC ++ F   + EE +        R   +++ 
Sbjct: 123 SFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMKQMIVRCKGILEA 182

Query: 186 EKVPYVPEGLEAIIFTADGDMRQALNNLQ 214
           E V    + L A++     D R+ +N LQ
Sbjct: 183 EGVEVDMKVLAALVKKNFPDFRRTINELQ 211

Length = 316

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

 Score =  141 bits (357), Expect = 3e-38
 Identities = 82/288 (28%), Positives = 130/288 (45%), Gaps = 53/288 (18%)

Query: 12  DIPWVEKYRPTKVCDIVGNLDAVARL---------GIIARDGNMPNLILAGPPGTGKTTS 62
            +PWVEKYRP  + D+VGN  A  +L         G   +      L+L GPPG GKT+ 
Sbjct: 1   MMPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKK-----ALLLYGPPGVGKTSL 55

Query: 63  ILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADS 122
             ALA++     Y   V+ELNASD R  DV+       A    +L   + K+++LDE D 
Sbjct: 56  AHALAND-----YGWEVIELNASDQRTADVIERVAGEAATSG-SLFGARRKLILLDEVDG 109

Query: 123 MT----AGAQQALRR-----------TM-EIYSNSTRFALACNVSSKIIEPIQSRCAIVR 166
           +      G  +A+             T  + Y  S R              +++ C ++ 
Sbjct: 110 IHGNEDRGGARAILELIKKAKQPIILTANDPYDPSLR-------------ELRNACLMIE 156

Query: 167 FSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQE 226
           F RLS   I+  L  + ++E +    E L+ I   + GD+R A+N+LQA   G+  +  E
Sbjct: 157 FKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLE 216

Query: 227 NVFKVCDQPHPLHVKNMVRNVLEGK-FDDACSGLKQLYDLGYSPTDII 273
           +V  +  +     + + +  V + +  D A   L+  YD+   P D+I
Sbjct: 217 DVKTLGRRDREESIFDALDAVFKARNADQA---LEASYDVDEDPDDLI 261

Length = 482

>gnl|CDD|237867 PRK14953, PRK14953, DNA polymerase III subunits gamma and tau; Provisional

 Score =  119 bits (301), Expect = 2e-30
 Identities = 90/297 (30%), Positives = 133/297 (44%), Gaps = 36/297 (12%)

Query: 13  IPWVEKYRPTKVCDIVGNLDAVAR--LGIIARDGNMPNLILAGPPGTGKTT--SILALAH 68
           IP+  KYRP    +++G  + V R     +         I AGP GTGKTT   ILA   
Sbjct: 4   IPFARKYRPKFFKEVIGQ-EIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVL 62

Query: 69  ELLGP----------NYREA-------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP-- 109
             L P          N  E        ++E++A+ +RGID +R       +  V+  P  
Sbjct: 63  NCLNPQEGEPCGKCENCVEIDKGSFPDLIEIDAASNRGIDDIRA-----LRDAVSYTPIK 117

Query: 110 GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSR 169
           GK+KV ++DEA  +T  A  AL +T+E     T F L      KI   I SRC    FS+
Sbjct: 118 GKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSK 177

Query: 170 LSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QA-TYSGFRFVNQ-- 225
            + E+I   L  +  EEK+ Y  + L+ +   ++G MR A + L QA TY   +   +  
Sbjct: 178 PTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLDQASTYGEGKVTIKVV 237

Query: 226 ENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN 282
           E    +  Q     V+  +  +LE   D+A   L+ L + GY+       L   I+N
Sbjct: 238 EEFLGIVSQE---SVRKFLNLLLESDVDEAIKFLRTLEEKGYNLNKFWKQLEEEIRN 291

Length = 486

>gnl|CDD|203973 pfam08542, Rep_fac_C, Replication factor C C-terminal domain

 Score =  105 bits (264), Expect = 2e-28
 Identities = 29/89 (32%), Positives = 47/89 (52%)

Query: 233 DQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLE 292
             P P  +K ++ ++L+G FD+A   L +L   G S  DI+  L  ++   ++ + LKLE
Sbjct: 1   GWPPPEDIKEILDSILKGDFDEARETLYELLVEGISAEDILKQLHEVLIRLDIPDSLKLE 60

Query: 293 FMKEAGFAHMRICDGVGSYLQLCGLLAKL 321
            +KE      R+ DG    +QL  L+AK 
Sbjct: 61  IIKELAEIEHRLSDGAKEIIQLEALIAKF 89

This is the C-terminal domain of RFC (replication factor-C) protein of the clamp loader complex which binds to the DNA sliding clamp (proliferating cell nuclear antigen, PCNA). The five modules of RFC assemble into a right-handed spiral, which results in only three of the five RFC subunits (RFC-A, RFC-B and RFC-C) making contact with PCNA, leaving a wedge-shaped gap between RFC-E and the PCNA clamp-loader complex. The C-terminal is vital for the correct orientation of RFC-E with respect to RFC-A. Length = 89

>gnl|CDD|225369 COG2812, DnaX, DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

 Score =  113 bits (284), Expect = 5e-28
 Identities = 79/301 (26%), Positives = 128/301 (42%), Gaps = 29/301 (9%)

Query: 18  KYRPTKVCDIVGNLDAVARL-GIIARDGNMPNLILAGPPGTGKTTS--ILALAHELLGPN 74
           KYRP    D+VG    V  L   +         + +GP G GKTT   ILA A       
Sbjct: 9   KYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGP 68

Query: 75  YREA-----------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
             E                  V+E++A+ + G+D +R  I+     KV   P  G++KV 
Sbjct: 69  TAEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIREIIE-----KVNYAPSEGRYKVY 123

Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           ++DE   ++  A  AL +T+E   +  +F LA     KI   I SRC    F RL  EEI
Sbjct: 124 IIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRFDFKRLDLEEI 183

Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QATYSGFRFVNQENVFKVCDQ 234
              L  ++ +E +    + L  I   A+G +R AL+ L QA   G   +  E+V  +   
Sbjct: 184 AKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGEGEITLESVRDMLGL 243

Query: 235 PHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-EMAEHLKLEF 293
                + +++  +L+G   +A   + +L + G  P   +  L   +++     + +  E 
Sbjct: 244 TDIEKLLSLLEAILKGDAKEALRLINELIEEGKDPEAFLEDLLNFLRDLLLFKQTVPNEL 303

Query: 294 M 294
            
Sbjct: 304 Q 304

Length = 515

>gnl|CDD|223546 COG0470, HolB, ATPase involved in DNA replication [DNA replication, recombination, and repair]

 Score = 99.7 bits (248), Expect = 1e-24
 Identities = 51/202 (25%), Positives = 85/202 (42%), Gaps = 21/202 (10%)

Query: 136 EIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGL 195
                +TRF L  N  SKI+  I+SRC  +RF   S  E ++ L             +GL
Sbjct: 39  TAPPKNTRFILITNDPSKILPTIRSRCQRIRFKPPSRLEAIAWL-----------EDQGL 87

Query: 196 EAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKV-CDQPHPLHVKNMVRNVLEGKFDD 254
           E I   A+GD R+A+N LQA       + +E++++           +     +L+   + 
Sbjct: 88  EEIAAVAEGDARKAINPLQALA--ALEIGEESIYEALLLALPESLAQLAALELLKLAENK 145

Query: 255 ACSGL----KQLYDLGYSPTDIITTLFRIIKNYEMA---EHLKLEFMKEAGFAHMRICDG 307
               L      L   G    D++  L R +   + A   E    E +     A  R+ DG
Sbjct: 146 FLEALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEKAAELLDALAQARRRLLDG 205

Query: 308 VGSYLQLCGLLAKLSIVRETAK 329
           + + +QL  LLA+L +++   +
Sbjct: 206 LLALIQLENLLAELLLLQLLLE 227

Length = 230

>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

 Score = 95.7 bits (238), Expect = 4e-24
 Identities = 47/148 (31%), Positives = 62/148 (41%), Gaps = 12/148 (8%)

Query: 28  VGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD 87
           VG  +A+  L          NL+L GPPGTGKTT   A+A+EL  P      + LNASD 
Sbjct: 1   VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAP--FLYLNASDL 58

Query: 88  RGIDVVRNKIKMFA--QKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNST--- 142
               VV      F            K  V+ +DE DS++ GAQ AL R +E  ++     
Sbjct: 59  LEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDR 118

Query: 143 ---RFALACNVSS--KIIEPIQSRCAIV 165
              R   A N      +   +  R  I 
Sbjct: 119 ENVRVIGATNRPLLGDLDRALYDRLDIR 146

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Length = 151

>gnl|CDD|233847 TIGR02397, dnaX_nterm, DNA polymerase III, subunit gamma and tau

 Score = 97.6 bits (244), Expect = 4e-23
 Identities = 75/302 (24%), Positives = 124/302 (41%), Gaps = 56/302 (18%)

Query: 18  KYRPTKVCDIVGNLDAVAR--LGIIARDGNMPNLILAGPPGTGKTTS--ILALA------ 67
           KYRP    D++G  + + +     I         + +GP GTGKT+   I A A      
Sbjct: 7   KYRPQTFEDVIGQ-EHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNG 65

Query: 68  ------------HELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHK 113
                        E+   +  + V+E++A+ + G+D +R  +       V   P  GK+K
Sbjct: 66  PDGEPCNECESCKEINSGSSLD-VIEIDAASNNGVDDIREILD-----NVKYAPSSGKYK 119

Query: 114 VVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDE 173
           V ++DE   ++  A  AL +T+E       F LA     KI   I SRC    F R+  E
Sbjct: 120 VYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRIPLE 179

Query: 174 EILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QATYSG------------F 220
           +I+ RL  ++ +E +    E LE I   ADG +R AL+ L Q    G             
Sbjct: 180 DIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGNGNITYEDVNELL 239

Query: 221 RFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRII 280
             V+ E + ++ +             +L     +A   L ++ + G  P   +  L  I+
Sbjct: 240 GLVDDEKLIELLE------------AILNKDTAEALKILDEILESGVDPEKFLEDLIEIL 287

Query: 281 KN 282
           ++
Sbjct: 288 RD 289

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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 355

>gnl|CDD|237869 PRK14962, PRK14962, DNA polymerase III subunits gamma and tau; Provisional

 Score = 96.4 bits (240), Expect = 3e-22
 Identities = 78/227 (34%), Positives = 106/227 (46%), Gaps = 31/227 (13%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNY 75
           KYRP    ++VG  D V +L I A   N  +   I AGP GTGKTT    LA  L   N 
Sbjct: 7   KYRPKTFSEVVGQ-DHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENR 65

Query: 76  REA-------------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKV 114
           +                     V+EL+A+ +RGID +R KI+      V   P  GK+KV
Sbjct: 66  KGVEPCNECRACRSIDEGTFMDVIELDAASNRGIDEIR-KIR----DAVGYRPMEGKYKV 120

Query: 115 VVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEE 174
            ++DE   +T  A  AL +T+E   +   F LA     K+   I SRC ++ F  +SDE 
Sbjct: 121 YIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNISDEL 180

Query: 175 ILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ--ATYSG 219
           I+ RL  V + E +    E L  I   A G +R AL  L+    +S 
Sbjct: 181 IIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSE 227

Length = 472

>gnl|CDD|184934 PRK14970, PRK14970, DNA polymerase III subunits gamma and tau; Provisional

 Score = 92.2 bits (229), Expect = 4e-21
 Identities = 66/214 (30%), Positives = 102/214 (47%), Gaps = 17/214 (7%)

Query: 18  KYRPTKVCDIVGNLDAVARL-GIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYR 76
           KYRP    D+VG       L   I  +     L+  GP G GKTT    LA ++  P Y 
Sbjct: 10  KYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYD 69

Query: 77  EA-------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVVVLDEADSMTAGA 127
           +        + EL+A+ +  +D +RN I      +V +PP  GK+K+ ++DE   +++ A
Sbjct: 70  DPNEDFSFNIFELDAASNNSVDDIRNLID-----QVRIPPQTGKYKIYIIDEVHMLSSAA 124

Query: 128 QQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEK 187
             A  +T+E       F LA     KII  I SRC I  F R++ ++I   L  +  +E 
Sbjct: 125 FNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVKEG 184

Query: 188 VPYVPEGLEAIIFTADGDMRQALN--NLQATYSG 219
           + +  + L  I   ADG +R AL+  +   T+ G
Sbjct: 185 IKFEDDALHIIAQKADGALRDALSIFDRVVTFCG 218

Length = 367

>gnl|CDD|184927 PRK14963, PRK14963, DNA polymerase III subunits gamma and tau; Provisional

 Score = 92.6 bits (230), Expect = 8e-21
 Identities = 79/284 (27%), Positives = 127/284 (44%), Gaps = 32/284 (11%)

Query: 17  EKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTS--ILALAHELLGP 73
           ++ RP    ++VG       L    R G + +  L +GP G GKTT+  ++A+A    G 
Sbjct: 6   QRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGE 65

Query: 74  NYREA----------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
           + +                  V+E++A+ +  ++ VR+      ++KV L P  G  KV 
Sbjct: 66  DPKPCGECESCLAVRRGAHPDVLEIDAASNNSVEDVRD-----LREKVLLAPLRGGRKVY 120

Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           +LDEA  M+  A  AL +T+E       F LA     K+   I SR    RF RL++EEI
Sbjct: 121 ILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEI 180

Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQA---LNNLQATYSGFRFVNQENVFKVC 232
             +L  +++ E     PE L+ +   ADG MR A   L  L A  +       E    + 
Sbjct: 181 AGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLALGTPVTRKQVEEALGL- 239

Query: 233 DQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTL 276
             P    ++ +   + +G   +A SG  QLY  G++   ++  L
Sbjct: 240 --PPQERLRGIAAALAQGDAAEALSGAAQLYRDGFAARTLVEGL 281

Length = 504

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

 Score = 90.1 bits (225), Expect = 3e-20
 Identities = 55/237 (23%), Positives = 102/237 (43%), Gaps = 25/237 (10%)

Query: 17  EKYRPTKVCDIVGNLDAVARLGIIAR---DGNMPNLILAGPPGTGKTTSILALAHELLGP 73
           E+ RP  + ++VG    +     + R    G + ++IL GPPGTGKTT    +A      
Sbjct: 4   ERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT--- 60

Query: 74  NYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQAL-- 131
           +       L+A    G+  +R   ++  + +     G+  ++ +DE        Q AL  
Sbjct: 61  DAP--FEALSAVTS-GVKDLR---EVIEEARQRRSAGRRTILFIDEIHRFNKAQQDALLP 114

Query: 132 ---RRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKV 188
                T+ +   +T      N S ++   + SR  +     LS+E+I   L   +++++ 
Sbjct: 115 HVEDGTITLIGATTE-----NPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRALEDKER 169

Query: 189 PYV---PEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKN 242
             V    E L+A+   A+GD R+ALN L+    G   +  E + +   +    + K+
Sbjct: 170 GLVELDDEALDALARLANGDARRALNLLELAALGVDSITLELLEEALQKRAARYDKD 226

Length = 413

>gnl|CDD|235943 PRK07133, PRK07133, DNA polymerase III subunits gamma and tau; Validated

 Score = 90.3 bits (224), Expect = 6e-20
 Identities = 77/292 (26%), Positives = 134/292 (45%), Gaps = 27/292 (9%)

Query: 13  IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTT--SILALA-- 67
                KYRP    DIVG    V  L  I +   + +  L +GP GTGKT+   I A A  
Sbjct: 6   KALYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALN 65

Query: 68  --HE--LLGP--------NYREAVMELNASDDRGIDVVRN---KIKMFAQKKVTLPPGKH 112
             H+  LL P        N    ++E++A+ + G+D +R     +K    +       K+
Sbjct: 66  CSHKTDLLEPCQECIENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQ------SKY 119

Query: 113 KVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSD 172
           K+ ++DE   ++  A  AL +T+E       F LA     KI   I SR     F R+S+
Sbjct: 120 KIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISE 179

Query: 173 EEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QATYSGFRFVNQENVFKV 231
           +EI+SRL  ++++E + Y    L+ I   + G +R AL+   Q +  G   +  +NV ++
Sbjct: 180 DEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFGNNKITLKNVEEL 239

Query: 232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY 283
                  ++ N++  +      +  + L Q+ + G  P  ++ +L  ++K +
Sbjct: 240 FGLVSNENLINLLNLLYSKDIKEVLNILNQIKEQGIDPELLLISLINLVKEF 291

Length = 725

>gnl|CDD|235638 PRK05896, PRK05896, DNA polymerase III subunits gamma and tau; Validated

 Score = 84.1 bits (208), Expect = 6e-18
 Identities = 72/298 (24%), Positives = 124/298 (41%), Gaps = 30/298 (10%)

Query: 17  EKYRPTKVCDIVG-NLDAVARLGIIARDGNMPNLILAGPPGTGKTT--SILALAHELLGP 73
            KYRP     I+G  L     +  I  +      I +GP G GKT+   I A A   L P
Sbjct: 8   RKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNP 67

Query: 74  ---------------NYREAV--MELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVV 116
                          N  ++V  +EL+A+ + G+D +RN I        T    K+KV +
Sbjct: 68  KDGDCCNSCSVCESINTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTF---KYKVYI 124

Query: 117 LDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEIL 176
           +DEA  ++  A  AL +T+E       F  A     KI   I SRC    F +L++ E+ 
Sbjct: 125 IDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKKLNNSELQ 184

Query: 177 SRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ--ATY--SGFRFVNQENVFKVC 232
             L  + ++EK+      ++ I   ADG +R  L+ L   +T+  S     +    F + 
Sbjct: 185 ELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQLSTFKNSEIDIEDINKTFGLV 244

Query: 233 DQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLK 290
           D    +   N++  + +   ++  + + +L   G +       L  ++ +  + +  K
Sbjct: 245 DNNKKI---NLIELIQKNDIEELRNLINELESKGINFEAFCRDLINLLIDLLVYQKTK 299

Length = 605

>gnl|CDD|180643 PRK06645, PRK06645, DNA polymerase III subunits gamma and tau; Validated

 Score = 79.9 bits (197), Expect = 1e-16
 Identities = 67/236 (28%), Positives = 100/236 (42%), Gaps = 28/236 (11%)

Query: 7   SSSAYDIPWVEKYRPTKVCDIVGNLDAVARLG-IIARDGNMPNLILAGPPGTGKTTS--I 63
           SS+ Y IP+  KYRP+   ++ G    V  L   I  D      +L G  G GKTTS  I
Sbjct: 4   SSNQY-IPFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARI 62

Query: 64  LALAHELLGP---------------------NYREAVMELNASDDRGIDVVRNKIKMFAQ 102
           +A A                           +    ++E++A+    +D +R  I+    
Sbjct: 63  IAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEY 122

Query: 103 KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRC 162
           K +    GKHK+ ++DE   ++ GA  AL +T+E       F  A     KI   I SRC
Sbjct: 123 KPLQ---GKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRC 179

Query: 163 AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS 218
                 RLS EEI   L  + ++E +    E L  I + ++G  R A++ L    S
Sbjct: 180 QRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAAS 235

Length = 507

>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau; Provisional

 Score = 79.8 bits (197), Expect = 2e-16
 Identities = 66/227 (29%), Positives = 101/227 (44%), Gaps = 30/227 (13%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTT--SILALAHELLGPN 74
           KYRP+    +VG       L        + +  L  GP G GKTT   I A         
Sbjct: 10  KYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLT 69

Query: 75  YR-EA-----------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKV 114
              EA                 + EL+A+ +  +D +RN I+     +V +PP  GK+K+
Sbjct: 70  ADGEACNECESCVAFNEQRSYNIHELDAASNNSVDDIRNLIE-----QVRIPPQIGKYKI 124

Query: 115 VVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEE 174
            ++DE   ++  A  A  +T+E   +   F LA     KI+  I SRC I  F+R+   +
Sbjct: 125 YIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVAD 184

Query: 175 ILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN--NLQATYSG 219
           I++ L  V  +E +   PE L  I   ADG MR AL+  +   +++G
Sbjct: 185 IVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTG 231

Length = 614

>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau; Provisional

 Score = 75.6 bits (186), Expect = 4e-15
 Identities = 64/227 (28%), Positives = 93/227 (40%), Gaps = 30/227 (13%)

Query: 18  KYRPTKVCDIVGNLDAVARL-GIIARDGNMPNLILAGPPGTGKTTS--ILALAHELLGPN 74
           K+R     ++VG    V  L   IA        +  GP G GKT++  ILA A      +
Sbjct: 9   KWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTND 68

Query: 75  YREA------------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPPG--KHKV 114
            +                    V+E++A+    +D  R  I+     +V   P   ++KV
Sbjct: 69  PKGRPCGTCEMCRAIAEGSAVDVIEMDAASHTSVDDAREIIE-----RVQFRPALARYKV 123

Query: 115 VVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEE 174
            ++DE   ++  A  AL +T+E       F LA     K+   I SRC    F R S  +
Sbjct: 124 YIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDFHRHSVAD 183

Query: 175 ILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ--ATYSG 219
           + + L  +   E +   P  LEAI   A G MR A N LQ  AT  G
Sbjct: 184 MAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTYG 230

Length = 585

>gnl|CDD|233087 TIGR00678, holB, DNA polymerase III, delta' subunit

 Score = 71.5 bits (176), Expect = 7e-15
 Identities = 39/151 (25%), Positives = 62/151 (41%), Gaps = 23/151 (15%)

Query: 49  LILAGPPGTGKTTSILALAHELLGPNYREAV----------MELNA----------SDDR 88
            + AGP G GK    LALA  LL                  +E                 
Sbjct: 17  YLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSI 76

Query: 89  GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALAC 148
            +D VR  ++  ++          +VV++++A+ M   A  AL +T+E    +T F L  
Sbjct: 77  KVDQVRELVEFLSRTPQE---SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILIT 133

Query: 149 NVSSKIIEPIQSRCAIVRFSRLSDEEILSRL 179
               K++  I+SRC ++ F  LS+E +L  L
Sbjct: 134 PSPEKLLPTIRSRCQVLPFPPLSEEALLQWL 164

This model describes the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tighly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classisified as delta'. The noise cutoff is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits. 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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 188

>gnl|CDD|237870 PRK14964, PRK14964, DNA polymerase III subunits gamma and tau; Provisional

 Score = 72.5 bits (178), Expect = 4e-14
 Identities = 78/299 (26%), Positives = 133/299 (44%), Gaps = 55/299 (18%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARD----GNMPNLIL-AGPPGTGKTTS--ILALA-HE 69
           KYRP+   D+VG  D + R   I R+      +P  IL  G  G GKTT   I++L  + 
Sbjct: 6   KYRPSSFKDLVGQ-DVLVR---ILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNC 61

Query: 70  LLGPNYREA----------------VMELNASDDRGIDVVRNKIKMFAQKKVTLP-PGKH 112
             GP                     V+E++A+ +  +D     IK+  +    LP   K 
Sbjct: 62  SNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVD----DIKVILENSCYLPISSKF 117

Query: 113 KVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSD 172
           KV ++DE   ++  A  AL +T+E  +   +F LA     KI   I SRC      ++  
Sbjct: 118 KVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIPT 177

Query: 173 EEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ--ATYSGFRFVNQENVFK 230
           ++++  L+ + ++E + +  E L+ I   + G MR AL  L+  A YS    +++++V  
Sbjct: 178 DKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSN-NKISEKSVRD 236

Query: 231 V--CDQPHPLHVKNMVRNVLEG-------KFDDACSGLKQLYDLGYSPTDIITTLFRII 280
           +  C   H L  +++V  +L G        F + C+          +P  I+  + +II
Sbjct: 237 LLGCVDKHIL--EDLVEAILLGDAQSALNVFRELCN--------TSNPVIILEGMLQII 285

Length = 491

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

 Score = 72.3 bits (178), Expect = 4e-14
 Identities = 57/224 (25%), Positives = 97/224 (43%), Gaps = 23/224 (10%)

Query: 2   ASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIAR---DGNMPNLILAGPPGTG 58
            S   S + + +P  E+ RP  + ++VG    +     + R    G++ ++IL GPPGTG
Sbjct: 1   TSLDLSDNEFRMPLAERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTG 60

Query: 59  KTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLD 118
           KTT    +A      N   A   L+A    G+  +R  I+   + +     G+  ++ LD
Sbjct: 61  KTTLARLIAGTT---NA--AFEALSAVTS-GVKDLREIIE---EARKNRLLGRRTILFLD 111

Query: 119 EADSMTAGAQQALRRTMEIYSNSTRF--ALACNVSSKIIEPIQSRCAIVRFSRLSDEEIL 176
           E        Q AL   +E  + +     A   N S ++   + SR  +     LS E+I 
Sbjct: 112 EIHRFNKAQQDALLPHVE--NGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIK 169

Query: 177 SRLMVVVQEEKVPYV-------PEGLEAIIFTADGDMRQALNNL 213
             L   + +E+            E L+ ++  ++GD R+ALN L
Sbjct: 170 KLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLL 213

Length = 436

>gnl|CDD|236333 PRK08691, PRK08691, DNA polymerase III subunits gamma and tau; Validated

 Score = 69.4 bits (169), Expect = 6e-13
 Identities = 65/232 (28%), Positives = 104/232 (44%), Gaps = 24/232 (10%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYR 76
           K+RP    D+VG    V  L     +G + +  +L G  G GKTT    LA  L   N +
Sbjct: 9   KWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQ 68

Query: 77  EA-------------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVL 117
                                ++E++A+ + GID +R  ++  AQ   T   GK+KV ++
Sbjct: 69  HGEPCGVCQSCTQIDAGRYVDLLEIDAASNTGIDNIREVLEN-AQYAPTA--GKYKVYII 125

Query: 118 DEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILS 177
           DE   ++  A  A+ +T+E      +F LA     K+   + SRC       ++ +++  
Sbjct: 126 DEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVAD 185

Query: 178 RLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QATYSGFRFVNQENV 228
            L  V+  EK+ Y P  L+ +   A G MR AL+ L QA   G   V + +V
Sbjct: 186 HLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIALGSGKVAENDV 237

Length = 709

>gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau; Provisional

 Score = 65.9 bits (160), Expect = 6e-12
 Identities = 74/281 (26%), Positives = 112/281 (39%), Gaps = 49/281 (17%)

Query: 14  PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNM-PNLILAGPPGTGKTTSILALAHELLG 72
               +YRP    ++ G     A L   A++  + P  + +G  G GKTT     A  L  
Sbjct: 5   SLTARYRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKAL-- 62

Query: 73  PNYREA----------------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP- 109
            N   A                      V+E++ + +RGID  +       ++ +   P 
Sbjct: 63  -NCETAPTGEPCNTCEQCRKVTQGMHVDVVEIDGASNRGIDDAKR-----LKEAIGYAPM 116

Query: 110 -GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFS 168
            G++KV ++DEA  +T  A  AL +T+E       F LA     K    I SRC    F+
Sbjct: 117 EGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFT 176

Query: 169 RLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQ---------ALNNLQATYSG 219
           RLS+  + + L  V+  E V Y P  +  I   A G +R          AL   + T  G
Sbjct: 177 RLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLALGESRLTIDG 236

Query: 220 FRFV----NQENVFKVCD---QPHPLHVKNMVRNVLEGKFD 253
            R V     QE   ++ +       L V N+VR +L+   D
Sbjct: 237 ARGVLGLAGQELFLRLMEALAAQDCLGVANVVRELLDRGVD 277

Length = 624

>gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau; Validated

 Score = 65.2 bits (159), Expect = 1e-11
 Identities = 59/215 (27%), Positives = 93/215 (43%), Gaps = 28/215 (13%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYR 76
           KYRP    +I+G    VA L    R     +  + +G  GTGKTT     A  L   N  
Sbjct: 10  KYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPT 69

Query: 77  EA--------------------VMELNASDDRGIDVVR--NKIKMFAQKKVTLPPGKHKV 114
           E                     V+E++ +  RGI+ +R  N+  +F   K      ++K+
Sbjct: 70  EDQEPCNQCASCKEISSGTSLDVLEIDGASHRGIEDIRQINETVLFTPSK-----SRYKI 124

Query: 115 VVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEE 174
            ++DE   +T  A  +L +T+E      +F LA     KI   I SRC  +   R+ +E 
Sbjct: 125 YIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEET 184

Query: 175 ILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQA 209
           I+ +L ++ ++E +    E L  I   A G +R A
Sbjct: 185 IIDKLALIAKQEGIETSREALLPIARAAQGSLRDA 219

Length = 451

>gnl|CDD|180132 PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated

 Score = 63.9 bits (156), Expect = 2e-11
 Identities = 45/135 (33%), Positives = 70/135 (51%), Gaps = 12/135 (8%)

Query: 50  ILAGPPGTGKTTSILA--LAHELLG-PNYREAV--MELNASDDR--GIDVVRNKIKMFAQ 102
           I+ G  G GK  S+LA  +A ++LG    RE V  +E    + +  G+D +RN I+   +
Sbjct: 30  IIVGEDGIGK--SLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRNIIEEVNK 87

Query: 103 KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRC 162
           K      G  KV+++  ++ MT  AQ A  +T+E         L C    +I++ I+SRC
Sbjct: 88  KPYE---GDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRC 144

Query: 163 AIVRFSRLSDEEILS 177
            I + +RLS EEI  
Sbjct: 145 QIYKLNRLSKEEIEK 159

Length = 313

>gnl|CDD|184920 PRK14956, PRK14956, DNA polymerase III subunits gamma and tau; Provisional

 Score = 64.6 bits (157), Expect = 2e-11
 Identities = 63/216 (29%), Positives = 91/216 (42%), Gaps = 27/216 (12%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHEL--LGPN 74
           KYRP    D++    A+  L    + G + +  I  GP G GKTT    LA  L    P 
Sbjct: 11  KYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPI 70

Query: 75  YREA-----------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
             E                  V+E++A+ +RGI+ +R       +  V   P  GK+KV 
Sbjct: 71  GNEPCNECTSCLEITKGISSDVLEIDAASNRGIENIRE-----LRDNVKFAPMGGKYKVY 125

Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           ++DE   +T  +  AL +T+E       F LA     KI E I SRC    F ++    +
Sbjct: 126 IIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKVPLSVL 185

Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN 211
                 + + E V Y  EGL  I    DG +R  L+
Sbjct: 186 QDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLS 221

Length = 484

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

 Score = 59.9 bits (146), Expect = 3e-11
 Identities = 33/140 (23%), Positives = 56/140 (40%), Gaps = 27/140 (19%)

Query: 49  LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDV---VRNKIKMFAQKKV 105
           L+L GPPGTGKTT   A+A EL  P      +E++ S+     V    +   ++F   K 
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAP-----FIEISGSELVSKYVGESEKRLRELFEAAKK 55

Query: 106 TLPPGKHKVVVLDEADSM-----------TAGAQQALRRTMEIYSNSTR---FALACNVS 151
             P     V+ +DE D++           +      L   ++ +++S        A N  
Sbjct: 56  LAPC----VIFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFTSSLSKVIVIAATNRP 111

Query: 152 SKIIEPI-QSRCAIVRFSRL 170
            K+   + + R   +    L
Sbjct: 112 DKLDPALLRGRFDRIIEFPL 131

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

>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated

 Score = 63.4 bits (155), Expect = 5e-11
 Identities = 83/297 (27%), Positives = 125/297 (42%), Gaps = 70/297 (23%)

Query: 52  AGPPGTGKTTS--ILALAHELLGP------NYREA-----------VMELNASDDRGIDV 92
           +GP GTGKT++  I A A   L P      N  E            V+E++A+ + G+D 
Sbjct: 44  SGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDVIEIDAASNNGVDE 103

Query: 93  VRNKIKMFAQKKVTLPP--GKHKVVVLDEADSMTAGAQQALRRTME------IYSNSTRF 144
           +R+        KV   P   K+KV ++DE   ++ GA  AL +T+E      I      F
Sbjct: 104 IRDIRD-----KVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVI------F 152

Query: 145 ALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG 204
            LA     KI   I SRC    F R+S E+I+ RL  ++ +E + Y  E L  I   A+G
Sbjct: 153 ILATTEPHKIPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEG 212

Query: 205 DMRQALNNL-QA--------TYS------GFRFVNQENVFKVCDQPHPLHVKNMVRNVLE 249
            MR AL+ L QA        TY       G   V+QE +              +V  ++E
Sbjct: 213 GMRDALSILDQAISFGDGKVTYEDALEVTG--SVSQEALDD------------LVDAIVE 258

Query: 250 GKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN---YEMAEHLKLEFMKEAGFAHMR 303
           G    A   L++L D G  P   I  L   +++    + +  L++           +
Sbjct: 259 GDVAKALKILEELLDEGKDPNRFIEDLIYYLRDLLLVKTSPELEILDESTENDELFK 315

Length = 559

>gnl|CDD|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau; Provisional

 Score = 63.2 bits (154), Expect = 5e-11
 Identities = 55/220 (25%), Positives = 89/220 (40%), Gaps = 31/220 (14%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHEL------ 70
           KYRP    D+ G       L      G + +  L  G  G GKT++   LA  L      
Sbjct: 9   KYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGL 68

Query: 71  ------LGPNYREA-------VMELNASDDRGIDVVR---NKIKMFAQKKVTLPP-GKHK 113
                 + P   E        V E++ + + G+D +R     +K        LP   ++K
Sbjct: 69  TAEPCNVCPPCVEITEGRSVDVFEIDGASNTGVDDIRELRENVKY-------LPSRSRYK 121

Query: 114 VVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDE 173
           + ++DE   ++  A  AL +T+E      +F  A     K+   I SRC    F R+  +
Sbjct: 122 IFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRFDFRRIPLQ 181

Query: 174 EILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL 213
           +I+ RL  +  +E +      L  +    DG MR +L+ L
Sbjct: 182 KIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTL 221

Length = 576

>gnl|CDD|221959 pfam13177, DNA_pol3_delta2, DNA polymerase III, delta subunit

 Score = 59.5 bits (145), Expect = 6e-11
 Identities = 38/143 (26%), Positives = 62/143 (43%), Gaps = 23/143 (16%)

Query: 49  LILAGPPGTGKTTSILALAHELL-------GPNYREAVMELNASDDR------------- 88
            + +GP G GK    L  A  L         P       +   + +              
Sbjct: 22  YLFSGPDGVGKLELALEFAKALFCENPQDDEPCGECKSCKRIENGNHPDVIIIEPEGKSI 81

Query: 89  GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALAC 148
            ID +R  I+ F++K      GK KV ++++A+ MT  A  AL +T+E    +T F L  
Sbjct: 82  KIDQIRELIEEFSKKPFE---GKKKVYIIEDAEKMTESAANALLKTLEEPPENTYFILLT 138

Query: 149 NVSSKIIEPIQSRCAIVRFSRLS 171
           +  +K++  I+SRC ++ F  LS
Sbjct: 139 SNPNKLLPTIRSRCQVINFKPLS 161

DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalyzed reaction. The delta subunit is also known as HolA. Length = 161

>gnl|CDD|169667 PRK09112, PRK09112, DNA polymerase III subunit delta'; Validated

 Score = 62.0 bits (151), Expect = 9e-11
 Identities = 54/219 (24%), Positives = 87/219 (39%), Gaps = 40/219 (18%)

Query: 27  IVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHELLG-PNYREAVMELNA 84
           + G+ +A A L    R+G + + +L  GP G GK T    LA+ +L  P+  EA   L  
Sbjct: 25  LFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLAD 84

Query: 85  SD--------------------DRGIDV-------------VRNKIKMFAQKKVTLPPGK 111
            D                     R  D              +R      +Q   T   G 
Sbjct: 85  PDPASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQ---TSGDGN 141

Query: 112 HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLS 171
            ++V++D AD M   A  A+ +T+E       F L  + S +++  I+SRC  +    L 
Sbjct: 142 WRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLD 201

Query: 172 DEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQAL 210
           D+E+   L  +          E  EA++  + G +R+AL
Sbjct: 202 DDELKKALSHL--GSSQGSDGEITEALLQRSKGSVRKAL 238

Length = 351

>gnl|CDD|235223 PRK04132, PRK04132, replication factor C small subunit; Provisional

 Score = 62.5 bits (152), Expect = 1e-10
 Identities = 26/46 (56%), Positives = 32/46 (69%)

Query: 14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGK 59
          PWVEKYRP ++ DIVG    V RL    + G+MP+L+ AGPPG GK
Sbjct: 8  PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGK 53

Length = 846

>gnl|CDD|236267 PRK08451, PRK08451, DNA polymerase III subunits gamma and tau; Validated

 Score = 61.6 bits (150), Expect = 2e-10
 Identities = 63/220 (28%), Positives = 107/220 (48%), Gaps = 26/220 (11%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARD-GNMPNLIL-AGPPGTGKTTSILALAHELL---G 72
           KYRP    +++G  ++V++   +A D   + +  L +G  G+GKT+S    A  L+   G
Sbjct: 7   KYRPKHFDELIGQ-ESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQG 65

Query: 73  PNYREA----------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVV 116
           P+                    ++E++A+ +RGID +R  I+   Q K      + K+ +
Sbjct: 66  PSSTPCDTCIQCQSALENRHIDIIEMDAASNRGIDDIRELIE---QTKYKPSMARFKIFI 122

Query: 117 LDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEIL 176
           +DE   +T  A  AL +T+E   +  +F LA     K+   I SR    RF ++    I+
Sbjct: 123 IDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQIPQNSII 182

Query: 177 SRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QA 215
           S L  ++++E V Y PE LE +  + +G +R  L  L QA
Sbjct: 183 SHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLLDQA 222

Length = 535

>gnl|CDD|235845 PRK06647, PRK06647, DNA polymerase III subunits gamma and tau; Validated

 Score = 60.9 bits (148), Expect = 3e-10
 Identities = 58/214 (27%), Positives = 94/214 (43%), Gaps = 27/214 (12%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHEL---LGP 73
           K RP     + G    V  L        + N  I +GP G GKT+S  A A  L    GP
Sbjct: 9   KRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGP 68

Query: 74  ---------NYREA-------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
                    + +         V+E++ + +  +  VR +IK    +++  PP   +++V 
Sbjct: 69  TPMPCGECSSCKSIDNDNSLDVIEIDGASNTSVQDVR-QIK----EEIMFPPASSRYRVY 123

Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           ++DE   ++  A  AL +T+E       F  A     K+   I+SRC    F  LS E+I
Sbjct: 124 IIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRLLSLEKI 183

Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQA 209
            + L  V  E+++ Y  E L+ I + + G +R A
Sbjct: 184 YNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDA 217

Length = 563

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

 Score = 53.9 bits (129), Expect = 5e-09
 Identities = 31/139 (22%), Positives = 53/139 (38%), Gaps = 19/139 (13%)

Query: 48  NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTL 107
            +++ GPPG+GKTT   ALA EL  P     V+ ++  D     + +  + +   KK + 
Sbjct: 4   VILIVGPPGSGKTTLARALARELGPPGGG--VIYIDGEDILEEVLDQLLLIIVGGKKASG 61

Query: 108 PPGK-------------HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS--- 151
                              V++LDE  S+    Q+AL   +E            N++   
Sbjct: 62  SGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVIL 121

Query: 152 -SKIIEPIQSRCAIVRFSR 169
            +   + +       RF R
Sbjct: 122 TTNDEKDLGPALLRRRFDR 140

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

>gnl|CDD|184925 PRK14961, PRK14961, DNA polymerase III subunits gamma and tau; Provisional

 Score = 56.4 bits (136), Expect = 6e-09
 Identities = 66/288 (22%), Positives = 122/288 (42%), Gaps = 18/288 (6%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNL-ILAGPPGTGKTTSILALAHEL-----L 71
           K+RP    DI+G    V  +      G + +  +L+G  G GKTT    LA  L     +
Sbjct: 9   KWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGI 68

Query: 72  GPN-YREAVMELNASDDRGIDVV------RNKIK----MFAQKKVTLPPGKHKVVVLDEA 120
             N  R+ ++         +D++      R K++    +      +    + KV ++DE 
Sbjct: 69  TSNPCRKCIICKEIEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEV 128

Query: 121 DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLM 180
             ++  +  AL +T+E      +F LA     KI + I SRC   +   +S+E+I + L 
Sbjct: 129 HMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLK 188

Query: 181 VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QATYSGFRFVNQENVFKVCDQPHPLH 239
            ++ +E +      L+ I + A G MR ALN L  A   G   +N +NV  +    +   
Sbjct: 189 YILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINLGKGNINIKNVTDMLGLLNEKQ 248

Query: 240 VKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAE 287
              +   +L+         L ++  +G    +I+  + R + +  M++
Sbjct: 249 SFLLTDALLKKDSKKTMLLLNKISSIGIEWENILIEMLRFLHHISMSQ 296

Length = 363

>gnl|CDD|236011 PRK07399, PRK07399, DNA polymerase III subunit delta'; Validated

 Score = 53.8 bits (130), Expect = 3e-08
 Identities = 54/227 (23%), Positives = 92/227 (40%), Gaps = 46/227 (20%)

Query: 26  DIVGNLDAVARL-GIIARDGNMPNLILAGPPGTGKTTSILALAHELLG------------ 72
           +++G   A+  L   I ++   P  + AGP G G+  + L     LL             
Sbjct: 5   NLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRL 64

Query: 73  ------------PNYREAVMELNASD--DRG----------IDVVRNKIKMF-AQKKVTL 107
                       P Y+     + AS+  + G          ++ +R  IK F ++  +  
Sbjct: 65  EEGNHPDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIRE-IKRFLSRPPLE- 122

Query: 108 PPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRF 167
                KVVV+++A++M   A  AL +T+E   N T   L       ++  I SRC I+ F
Sbjct: 123 --APRKVVVIEDAETMNEAAANALLKTLEEPGNGT-LILIAPSPESLLPTIVSRCQIIPF 179

Query: 168 SRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ 214
            RLSDE++   L  +  EE +         ++  A G    A+ N++
Sbjct: 180 YRLSDEQLEQVLKRLGDEEILNIN---FPELLALAQGSPGAAIANIE 223

Length = 314

>gnl|CDD|184919 PRK14955, PRK14955, DNA polymerase III subunits gamma and tau; Provisional

 Score = 54.1 bits (130), Expect = 4e-08
 Identities = 55/228 (24%), Positives = 87/228 (38%), Gaps = 47/228 (20%)

Query: 18  KYRPTKVCDI------VGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL- 70
           KYRP K  DI         +    R+G +         I +G  G GKTT+    A  + 
Sbjct: 9   KYRPKKFADITAQEHITRTIQNSLRMGRVGH-----GYIFSGLRGVGKTTAARVFAKAVN 63

Query: 71  -----LGPNYREAVM---------------------ELNASDDRGID---VVRNKIKMFA 101
                   +Y + V                      E +A+ +  +D   ++R  ++   
Sbjct: 64  CQRMIDDADYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGP 123

Query: 102 QKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSR 161
           QK      G+++V ++DE   ++  A  A  +T+E       F  A     KI   I SR
Sbjct: 124 QK------GRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASR 177

Query: 162 CAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQA 209
           C    F R+  EEI  +L  + + E +    + L+ I   A G MR A
Sbjct: 178 CQRFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDA 225

Length = 397

>gnl|CDD|237873 PRK14969, PRK14969, DNA polymerase III subunits gamma and tau; Provisional

 Score = 53.6 bits (129), Expect = 7e-08
 Identities = 43/150 (28%), Positives = 74/150 (49%), Gaps = 4/150 (2%)

Query: 80  MELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS 139
           +E++A+ +  +D +R  +   AQ   T   G+ KV ++DE   ++  A  A+ +T+E   
Sbjct: 91  IEVDAASNTQVDAMRELLDN-AQYAPTR--GRFKVYIIDEVHMLSKSAFNAMLKTLEEPP 147

Query: 140 NSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAII 199
              +F LA     KI   + SRC      ++    I+S L  ++++E +P+    L+ + 
Sbjct: 148 EHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLA 207

Query: 200 FTADGDMRQALNNL-QATYSGFRFVNQENV 228
             A G MR AL+ L QA   G   VN+  V
Sbjct: 208 RAAAGSMRDALSLLDQAIAYGGGTVNESEV 237

Length = 527

>gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau; Provisional

 Score = 53.4 bits (128), Expect = 7e-08
 Identities = 61/230 (26%), Positives = 90/230 (39%), Gaps = 51/230 (22%)

Query: 18  KYRPTKVCD------IVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL- 70
           KYRP+K  D      I   +    R+    R G+    I +G  G GKTT+    A  + 
Sbjct: 9   KYRPSKFADITAQEHITHTIQNSLRMD---RVGH--GYIFSGLRGVGKTTAARVFAKAVN 63

Query: 71  -----LGPNYREAVME----------------LNAS----------DDRGIDVVRNKIKM 99
                  P Y + V E                LN S          DD  I  +R  ++ 
Sbjct: 64  CQRMIDDPVYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNSVDD--IRQLRENVRY 121

Query: 100 FAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQ 159
             QK      G+++V ++DE   ++  A  A  +T+E       F  A     KI   I 
Sbjct: 122 GPQK------GRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIA 175

Query: 160 SRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQA 209
           SRC    F R+  +EI S+L ++ + E +    + L+ I   A G MR A
Sbjct: 176 SRCQRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDA 225

Length = 620

>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau; Provisional

 Score = 53.3 bits (128), Expect = 8e-08
 Identities = 38/132 (28%), Positives = 63/132 (47%), Gaps = 5/132 (3%)

Query: 80  MELNASDDRGIDVVRNKIKMFAQKKVTLP-PGKHKVVVLDEADSMTAGAQQALRRTMEIY 138
           +E++A+ +RG+D    ++     K V  P  G+ KV ++DE   +T  A  A+ +T+E  
Sbjct: 96  IEMDAASNRGVD----EMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEP 151

Query: 139 SNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAI 198
               +F LA     KI   + SRC      ++    I+S L  ++ EE + +    L  +
Sbjct: 152 PEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLL 211

Query: 199 IFTADGDMRQAL 210
              A G MR AL
Sbjct: 212 AQAAQGSMRDAL 223

Length = 700

>gnl|CDD|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown domain fusion protein; Reviewed

 Score = 53.1 bits (128), Expect = 1e-07
 Identities = 55/216 (25%), Positives = 93/216 (43%), Gaps = 28/216 (12%)

Query: 14  PWVEKYRPTKVCDIVGNLDAVARLGIIARD---GNMPNLILAGPPGTGKTT--SILALAH 68
           P  ++ RP  + + VG    +    ++ R      + +LIL GPPG GKTT   I+A   
Sbjct: 17  PLADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIAN-- 74

Query: 69  ELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQ 128
                + R     LNA    G+  +R ++    ++      GK  ++ +DE        Q
Sbjct: 75  -----HTRAHFSSLNAV-LAGVKDLRAEVDRAKERLERH--GKRTILFIDEVHRFNKAQQ 126

Query: 129 QALRRTMEIYSNSTRFALAC---NVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE 185
            AL   +E   N T   +     N   ++ + + SR  + R   LSDE++   L   +Q+
Sbjct: 127 DALLPWVE---NGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQLLKRALQD 183

Query: 186 EKVPYV-------PEGLEAIIFTADGDMRQALNNLQ 214
           ++  Y        PE  + ++  A+GD R  LN L+
Sbjct: 184 KERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALE 219

Length = 725

>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau; Validated

 Score = 53.3 bits (128), Expect = 1e-07
 Identities = 39/133 (29%), Positives = 66/133 (49%), Gaps = 9/133 (6%)

Query: 81  ELNASDDRGIDVVRNKIKMFA--QKKVTLP-PGKHKVVVLDEADSMTAGAQQALRRTMEI 137
           E++A+ +RG+D      +M A  ++ V  P   + KV ++DE   +T  A  A+ +T+E 
Sbjct: 92  EMDAASNRGVD------EMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEE 145

Query: 138 YSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEA 197
                +F LA     KI   + SRC      ++    I+S L  ++ EE++ + P+ L  
Sbjct: 146 PPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRL 205

Query: 198 IIFTADGDMRQAL 210
           +   A G MR AL
Sbjct: 206 LARAAQGSMRDAL 218

Length = 830

>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau; Provisional

 Score = 53.0 bits (128), Expect = 1e-07
 Identities = 62/224 (27%), Positives = 97/224 (43%), Gaps = 45/224 (20%)

Query: 18  KYRPTKVCDIVGNLDAVA-------RLGIIARDGNMPNLILAGPPGTGKTTS--ILA--- 65
           KYRP +  ++VG  +A+A           IA     P  +  GP GTGKT+S  ILA   
Sbjct: 9   KYRPQRFDELVGQ-EAIATTLKNALISNRIA-----PAYLFTGPRGTGKTSSARILAKSL 62

Query: 66  --LAHELLGPN--------------YREAVMELNASDDRGIDVVRNKIK--MFAQKKVTL 107
             L  +   P                   V+E++A+ + G+D +R  I+   FA      
Sbjct: 63  NCLNSDKPTPEPCGKCELCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFA------ 116

Query: 108 PP--GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIV 165
            P   + KV V+DE   ++  A  AL +T+E       F LA     +++  I SRC   
Sbjct: 117 -PVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQRF 175

Query: 166 RFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQA 209
            F R+  E ++  L  + ++E +   PE L  +   + G +R A
Sbjct: 176 DFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGGLRDA 219

Length = 620

>gnl|CDD|184921 PRK14957, PRK14957, DNA polymerase III subunits gamma and tau; Provisional

 Score = 52.4 bits (125), Expect = 2e-07
 Identities = 32/109 (29%), Positives = 55/109 (50%)

Query: 110 GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSR 169
           G++KV ++DE   ++  +  AL +T+E      +F LA     KI   I SRC  +    
Sbjct: 118 GRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKH 177

Query: 170 LSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS 218
           +S  +I  +L +++ +E +    + LE I + A G +R AL+ L    S
Sbjct: 178 ISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLLDQAIS 226

Length = 546

>gnl|CDD|180738 PRK06871, PRK06871, DNA polymerase III subunit delta'; Validated

 Score = 50.9 bits (122), Expect = 3e-07
 Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 9/79 (11%)

Query: 87  DRGIDVVRN---KIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTR 143
           D G+D VR    K+   AQ+      G +KVV +  A+ +T  A  AL +T+E    +T 
Sbjct: 86  DIGVDQVREINEKVSQHAQQ------GGNKVVYIQGAERLTEAAANALLKTLEEPRPNTY 139

Query: 144 FALACNVSSKIIEPIQSRC 162
           F L  ++S+ ++  I SRC
Sbjct: 140 FLLQADLSAALLPTIYSRC 158

Length = 325

>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau; Provisional

 Score = 49.7 bits (119), Expect = 1e-06
 Identities = 41/130 (31%), Positives = 64/130 (49%), Gaps = 3/130 (2%)

Query: 81  ELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSN 140
           EL+A+ +RG+D V+  ++    K V    G+ KV ++DE   +T  A  A+ +T+E    
Sbjct: 97  ELDAASNRGVDEVQQLLEQAVYKPVQ---GRFKVFMIDEVHMLTNTAFNAMLKTLEEPPE 153

Query: 141 STRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIF 200
             +F LA     K+   + SRC       ++ E +L  L  V+  E VP  P+ L  +  
Sbjct: 154 YLKFVLATTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLAR 213

Query: 201 TADGDMRQAL 210
            A G MR AL
Sbjct: 214 AARGSMRDAL 223

Length = 618

>gnl|CDD|181214 PRK08058, PRK08058, DNA polymerase III subunit delta'; Validated

 Score = 46.8 bits (112), Expect = 7e-06
 Identities = 28/78 (35%), Positives = 41/78 (52%), Gaps = 6/78 (7%)

Query: 113 KVVVLDEADSMTAGAQQALRRTMEIYS-NSTRFALACNVSSKIIEPIQSRCAIVRFSRLS 171
           KV +++ AD MTA A  +L + +E  S  +T   L  N   +I+  I SRC +V F  L 
Sbjct: 112 KVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTEN-KHQILPTILSRCQVVEFRPLP 170

Query: 172 DEEILSRLMVVVQEEKVP 189
            E ++ RL    QEE + 
Sbjct: 171 PESLIQRL----QEEGIS 184

Length = 329

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 44.2 bits (105), Expect = 9e-06
 Identities = 23/111 (20%), Positives = 42/111 (37%), Gaps = 14/111 (12%)

Query: 49  LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR-----------GIDVVRNKI 97
            +L G  G+GKTT +  LA +L  PN R   +E  +               G+ +     
Sbjct: 7   GVLTGESGSGKTTLLRRLARQL--PNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTT 64

Query: 98  K-MFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALA 147
             +       L      ++++DEA  ++  A + LR   ++     +  L 
Sbjct: 65  AELLEAILDALKRRGRPLLIIDEAQHLSLEALEELRDLYDLSEKGIQVILV 115

Length = 124

>gnl|CDD|181551 PRK08769, PRK08769, DNA polymerase III subunit delta'; Validated

 Score = 46.1 bits (109), Expect = 1e-05
 Identities = 53/207 (25%), Positives = 81/207 (39%), Gaps = 39/207 (18%)

Query: 14  PWVEK-YRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG 72
           PW ++ Y  T     V  LDA  RLG          L++ GP G GK    LALA  +L 
Sbjct: 7   PWQQRAYDQT-----VAALDA-GRLG--------HGLLICGPEGLGKRAVALALAEHVLA 52

Query: 73  PNYREAVMELNA---------------------SDDRGIDVVRNKIKMFAQKKVTLPP-G 110
                A  +                         D    ++V  +++  +QK    P  G
Sbjct: 53  SGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLALTPQYG 112

Query: 111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRL 170
             +VV++D AD++   A  AL +T+E  S      L     +++   I+SRC  + F   
Sbjct: 113 IAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLP 172

Query: 171 SDEEILSRLMVVVQEEKVPYVPEGLEA 197
              E L+ L+     E+     E L+A
Sbjct: 173 PAHEALAWLLAQGVSERA--AQEALDA 197

Length = 319

>gnl|CDD|181538 PRK08699, PRK08699, DNA polymerase III subunit delta'; Validated

 Score = 46.4 bits (110), Expect = 1e-05
 Identities = 41/166 (24%), Positives = 63/166 (37%), Gaps = 36/166 (21%)

Query: 46  MPN-LILAGPPGTGKTTSILALAHELL------------------------GPNYREAVM 80
            PN  + AG  G GKT      A  LL                         P++ E + 
Sbjct: 20  RPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYE-IT 78

Query: 81  ELNASDDRG-------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRR 133
            L+   + G       ID VR  I       +T   G  +V+++  A+SM   A  +L +
Sbjct: 79  PLSDEPENGRKLLQIKIDAVREIID-NVY--LTSVRGGLRVILIHPAESMNLQAANSLLK 135

Query: 134 TMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRL 179
            +E       F L  + + K++  I+SRC  +     S EE L+ L
Sbjct: 136 VLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYL 181

Length = 325

>gnl|CDD|184922 PRK14958, PRK14958, DNA polymerase III subunits gamma and tau; Provisional

 Score = 45.1 bits (106), Expect = 3e-05
 Identities = 43/176 (24%), Positives = 82/176 (46%), Gaps = 7/176 (3%)

Query: 110 GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSR 169
           G+ KV ++DE   ++  +  AL +T+E   +  +F LA     K+   + SRC     ++
Sbjct: 118 GRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQ 177

Query: 170 LSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QATYSGFRFVNQENV 228
           L   +I +    +++EE V +    L+ +   A+G +R AL+ L Q+   G   V   +V
Sbjct: 178 LPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQSIAYGNGKVLIADV 237

Query: 229 FKVCDQPHPLHVKNMVRNVLEGKFDDACSG-----LKQLYDLGYSPTDIITTLFRI 279
             +     PL + +++   L  K  D   G     ++Q  D   +  D+++ L +I
Sbjct: 238 KTMLGTIEPLLLFDILE-ALAAKAGDRLLGCVTRLVEQGVDFSNALADLLSLLHQI 292

Length = 509

>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24

 Score = 44.9 bits (106), Expect = 3e-05
 Identities = 48/258 (18%), Positives = 90/258 (34%), Gaps = 62/258 (24%)

Query: 14  PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-----LILAGPPGTGKTTSILALAH 68
           PWVEKY+P    ++  +   +  +    +   + N     L++ GP G GK+T+I  L+ 
Sbjct: 73  PWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSK 132

Query: 69  ELLGPNYREAVMELN----ASDDRGIDVVRNKIKMFAQKKVTLPP--------------- 109
           E LG   +E           +D +    + +    F  +                     
Sbjct: 133 E-LGIQVQEWSNPTLPDFQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDD 191

Query: 110 --GKHKVVVLDEADSMTAGAQQALRRTME-IYSNSTRFALACNVS--------------- 151
                K++++++  +      +AL   +   Y +  R  L   ++               
Sbjct: 192 LMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIGRCPLVFIITESLEGDNNQRRLLFP 251

Query: 152 --SKIIEPIQSRCAIVRFSRLSDEEILSRLM------VVVQEEK-------VPYVPEGLE 196
             + + + I       R S +S   I   +M      +V  E K       VP     +E
Sbjct: 252 AETIMNKEILEEP---RVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTS-VE 307

Query: 197 AIIFTADGDMRQALNNLQ 214
            +     GD+R A+N+LQ
Sbjct: 308 LLCQGCSGDIRSAINSLQ 325

All proteins in this family for which functions are known are involved in DNA damage tolerance (likely cell cycle checkpoints).This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 637

>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein

 Score = 45.0 bits (106), Expect = 4e-05
 Identities = 59/274 (21%), Positives = 97/274 (35%), Gaps = 61/274 (22%)

Query: 14  PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN----------LILAGPPGTGKTTSI 63
            W EKY+P +  ++     A+ +  I   D  +            L+L GP G GK+T++
Sbjct: 8   LWTEKYKPRRRDEL-----AIHKKKIAEVDHWLKAVFLESNKQLILLLTGPSGCGKSTTV 62

Query: 64  LALAHELLGPNYREAV---------MELNASDDRGIDVVRNKIKMFAQKKVTLPPGKH-- 112
             L+ E LG    E            E    D RG  +V +  +M   ++  L   ++  
Sbjct: 63  KVLSKE-LGIEIIEWSNPEYLHNPDNECQKPDFRGDCIVNSLSQMEQFREFLLRGARYGS 121

Query: 113 --------KVVVLDEADSMTAGAQQALRRTMEIYSNSTRFA--LACNVSSKIIEPI--QS 160
                   K+++++E  +      +  R  +     S      + C      +E    Q 
Sbjct: 122 LQGGGLKKKLILVEELPNQFYSDAEKFREVIREVLQSIWHLPLIFCLTECNSLEGDNNQD 181

Query: 161 RCAIV-------------RFSRLSDEEILSRLM------VVVQEE--KVPYVPEGLEAII 199
           R  I              R   ++   I    M      + VQE   K P     LE I 
Sbjct: 182 RFGIDAETIMTKDILIMPRIDTITFNPIAPTFMKKALVRISVQEGKLKSPKSDSKLEVIC 241

Query: 200 FTADGDMRQALNNLQATYSG-FRFVNQENVFKVC 232
             A GD+R A+N+LQ + SG        +   +C
Sbjct: 242 QEAGGDLRSAINSLQFSSSGPNNDRKSGSNSVLC 275

Length = 490

>gnl|CDD|237866 PRK14952, PRK14952, DNA polymerase III subunits gamma and tau; Provisional

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 48/195 (24%), Positives = 78/195 (40%), Gaps = 29/195 (14%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPN--LILAGPPGTGKTTSILALAHEL----- 70
           KYRP    ++VG  + V      A D    N   + +GP G GKT+S   LA  L     
Sbjct: 6   KYRPATFAEVVGQ-EHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQG 64

Query: 71  --------------LGPNYREA--VMELNASDDRGIDVVRNKIKMFAQKKVTLPP-GKHK 113
                         L PN   +  V+EL+A+   G+D  R        +    P   +++
Sbjct: 65  PTATPCGVCESCVALAPNGPGSIDVVELDAASHGGVDDTRE----LRDRAFYAPAQSRYR 120

Query: 114 VVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDE 173
           + ++DEA  +T     AL + +E       F  A     K++  I+SR     F  L   
Sbjct: 121 IFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYPFRLLPPR 180

Query: 174 EILSRLMVVVQEEKV 188
            + + +  + ++E V
Sbjct: 181 TMRALIARICEQEGV 195

Length = 584

>gnl|CDD|236022 PRK07471, PRK07471, DNA polymerase III subunit delta'; Validated

 Score = 43.1 bits (102), Expect = 1e-04
 Identities = 46/195 (23%), Positives = 78/195 (40%), Gaps = 46/195 (23%)

Query: 26  DIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILA-------LAHELLGPNY-- 75
            + G+  A A L    R G + +  ++ GP G GK T  LA       LA    G +   
Sbjct: 20  ALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKAT--LAYRMARFLLATPPPGGDGAV 77

Query: 76  -REAVMELNAS----------------------DDRG--------IDVVRNKIKMFAQKK 104
                + ++                        +++G        +D VR  I  F    
Sbjct: 78  PPPTSLAIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFG--- 134

Query: 105 VTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAI 164
           +T   G  +VV++D AD M A A  AL + +E     + F L  +  ++++  I+SRC  
Sbjct: 135 LTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRK 194

Query: 165 VRFSRLSDEEILSRL 179
           +R   L+ E+++  L
Sbjct: 195 LRLRPLAPEDVIDAL 209

Length = 365

>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau; Provisional

 Score = 43.1 bits (101), Expect = 2e-04
 Identities = 54/214 (25%), Positives = 91/214 (42%), Gaps = 23/214 (10%)

Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHELLGPNYR 76
           KYRP    ++VG       L      G + +  L  G  G GKTT    LA  L   N  
Sbjct: 8   KYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCL---NCE 64

Query: 77  EAVM----ELNAS-----DDRGIDVV------RNKIKMFAQKKVTLP----PGKHKVVVL 117
             V     E+ A+     + R ID++      R K++   +    +P     G+ KV ++
Sbjct: 65  TGVTSTPCEVCATCKAVNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLI 124

Query: 118 DEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILS 177
           DE   ++  +  AL +T+E      +F  A     K+   + SRC       L+ +EI  
Sbjct: 125 DEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITK 184

Query: 178 RLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN 211
            L  ++++E++    + +  I  +A G +R AL+
Sbjct: 185 HLGAILEKEQIAADQDAIWQIAESAQGSLRDALS 218

Length = 702

>gnl|CDD|221955 pfam13173, AAA_14, AAA domain

 Score = 39.1 bits (92), Expect = 5e-04
 Identities = 33/134 (24%), Positives = 52/134 (38%), Gaps = 13/134 (9%)

Query: 47  PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVT 106
             +++ GP   GKTT +L    ELL  N     + +N  D R + +    +     K + 
Sbjct: 3   KIIVITGPRQVGKTTLLLQFLKELLSENI----LYINLDDPRFLRLALLDLLEEFLKLL- 57

Query: 107 LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFAL----ACNVSSKIIEPIQSRC 162
                 K + LDE        + AL+R  +   N  R  L    +  +S +I   +  R 
Sbjct: 58  --LPGKKYLFLDEI-QKVPDWEDALKRLYDDGRN-LRIILTGSSSLLLSKEIATSLAGRA 113

Query: 163 AIVRFSRLSDEEIL 176
             +    LS EE L
Sbjct: 114 EELELYPLSFEEFL 127

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 127

>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

 Score = 40.8 bits (96), Expect = 7e-04
 Identities = 33/127 (25%), Positives = 53/127 (41%), Gaps = 23/127 (18%)

Query: 17  EKYRPTKVCDIVGNLDAVARLGIIARDGNMP-NLILAGPPGTGKTTSILALAHELLGPNY 75
           E Y P ++      ++ +A     A  G  P N+I+ GP GTGKT ++  +  EL   + 
Sbjct: 12  EDYIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSA 71

Query: 76  REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPP-------------------GKHKVVV 116
              V+ +N  + R    V +KI     K   +P                    GK  +V+
Sbjct: 72  NVEVVYINCLELRTPYQVLSKI---LNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVI 128

Query: 117 LDEADSM 123
           LDE D++
Sbjct: 129 LDEVDAL 135

Length = 366

>gnl|CDD|180394 PRK06090, PRK06090, DNA polymerase III subunit delta'; Validated

 Score = 38.6 bits (90), Expect = 0.003
 Identities = 15/53 (28%), Positives = 29/53 (54%)

Query: 110 GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRC 162
             +++ V++ AD+M   A  AL +T+E  + +  F L  +   +++  I SRC
Sbjct: 107 NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRC 159

Length = 319

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	331
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	100.0
PLN03025	319	replication factor C subunit; Provisional	100.0
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	100.0
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK00440	319	rfc replication factor C small subunit; Reviewed	100.0
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	100.0
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	100.0
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	100.0
PRK12402	337	replication factor C small subunit 2; Reviewed	100.0
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	100.0
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	100.0
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	100.0
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	100.0
COG2256	436	MGS1 ATPase related to the helicase subunit of the	100.0
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	100.0
PHA02544	316	44 clamp loader, small subunit; Provisional	100.0
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	100.0
PRK04132	846	replication factor C small subunit; Provisional	100.0
PRK05564	313	DNA polymerase III subunit delta'; Validated	100.0
PRK13342	413	recombination factor protein RarA; Reviewed	100.0
PRK13341	725	recombination factor protein RarA/unknown domain f	100.0
PRK04195	482	replication factor C large subunit; Provisional	100.0
PRK07993	334	DNA polymerase III subunit delta'; Validated	100.0
PRK07399	314	DNA polymerase III subunit delta'; Validated	100.0
PRK07940	394	DNA polymerase III subunit delta'; Validated	100.0
KOG2028	554	consensus ATPase related to the helicase subunit o	100.0
PRK08058	329	DNA polymerase III subunit delta'; Validated	100.0
PRK05707	328	DNA polymerase III subunit delta'; Validated	100.0
PRK06871	325	DNA polymerase III subunit delta'; Validated	100.0
PRK06964	342	DNA polymerase III subunit delta'; Validated	100.0
PRK08769	319	DNA polymerase III subunit delta'; Validated	100.0
PRK09112	351	DNA polymerase III subunit delta'; Validated	100.0
PRK05917	290	DNA polymerase III subunit delta'; Validated	100.0
PRK07471	365	DNA polymerase III subunit delta'; Validated	100.0
PRK06090	319	DNA polymerase III subunit delta'; Validated	100.0
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.98
PRK07132	299	DNA polymerase III subunit delta'; Validated	99.97
PRK08699	325	DNA polymerase III subunit delta'; Validated	99.97
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.96
PRK07276	290	DNA polymerase III subunit delta'; Validated	99.96
PRK05907	311	hypothetical protein; Provisional	99.95
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.95
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.95
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.95
PRK05629	318	hypothetical protein; Validated	99.94
PRK07452	326	DNA polymerase III subunit delta; Validated	99.94
PRK07914	320	hypothetical protein; Reviewed	99.94
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.94
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.93
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.93
PRK06585	343	holA DNA polymerase III subunit delta; Reviewed	99.92
PRK08487	328	DNA polymerase III subunit delta; Validated	99.92
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.92
PRK05818	261	DNA polymerase III subunit delta'; Validated	99.91
TIGR01128	302	holA DNA polymerase III, delta subunit. subunit ar	99.9
PRK05574	340	holA DNA polymerase III subunit delta; Reviewed	99.9
PRK08084	235	DNA replication initiation factor; Provisional	99.9
PRK06893	229	DNA replication initiation factor; Validated	99.88
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.88
PRK08727	233	hypothetical protein; Validated	99.88
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.88
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.87
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.87
PRK06581	263	DNA polymerase III subunit delta'; Validated	99.87
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.86
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.86
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.86
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.85
COG1466	334	HolA DNA polymerase III, delta subunit [DNA replic	99.85
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.83
PRK05642	234	DNA replication initiation factor; Validated	99.83
PRK06620	214	hypothetical protein; Validated	99.83
CHL00181	287	cbbX CbbX; Provisional	99.81
PRK09087	226	hypothetical protein; Validated	99.8
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.8
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.79
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.78
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.77
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.77
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.76
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.76
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	99.75
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.74
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.74
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.74
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.74
PRK12422	445	chromosomal replication initiation protein; Provis	99.74
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.73
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.73
PRK14700	300	recombination factor protein RarA; Provisional	99.73
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.72
CHL00195	489	ycf46 Ycf46; Provisional	99.72
CHL00176	638	ftsH cell division protein; Validated	99.72
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	99.71
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.71
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.71
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.7
PRK08485	206	DNA polymerase III subunit delta'; Validated	99.7
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.69
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.69
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.67
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.67
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.66
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.66
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.65
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.65
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.65
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.64
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.64
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.64
PRK10865	857	protein disaggregation chaperone; Provisional	99.64
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.62
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.62
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.62
CHL00095	821	clpC Clp protease ATP binding subunit	99.62
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.61
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.6
CHL00095	821	clpC Clp protease ATP binding subunit	99.6
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.6
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.6
COG2204	464	AtoC Response regulator containing CheY-like recei	99.59
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.58
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.58
PRK10865	857	protein disaggregation chaperone; Provisional	99.58
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	99.58
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.57
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.57
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.57
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.56
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	99.56
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.55
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.55
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.54
PF00004	132	AAA: ATPase family associated with various cellula	99.54
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.54
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.54
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.54
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	99.53
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.53
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.53
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.52
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.52
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.52
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.52
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.51
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.51
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.5
CHL00206	2281	ycf2 Ycf2; Provisional	99.5
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.49
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.49
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	99.49
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.49
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.49
KOG1514	767	consensus Origin recognition complex, subunit 1, a	99.49
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	99.48
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.48
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.48
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.47
PRK13531	498	regulatory ATPase RavA; Provisional	99.47
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.47
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.47
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.47
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.46
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.45
PF06144	172	DNA_pol3_delta: DNA polymerase III, delta subunit;	99.44
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.43
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.43
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.43
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.4
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.4
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.39
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	99.39
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.39
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.38
PHA02244	383	ATPase-like protein	99.35
COG0714	329	MoxR-like ATPases [General function prediction onl	99.35
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	99.35
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.34
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.33
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.33
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.32
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.32
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.3
PRK15115	444	response regulator GlrR; Provisional	99.3
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.29
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.29
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.27
smart00350	509	MCM minichromosome maintenance proteins.	99.27
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.26
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.26
PRK13765	637	ATP-dependent protease Lon; Provisional	99.26
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.25
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.24
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	99.23
PF07726	131	AAA_3: ATPase family associated with various cellu	99.2
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.19
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.19
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.15
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	99.14
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.14
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.14
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	99.13
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.13
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.11
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.11
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	99.1
PF13173	128	AAA_14: AAA domain	99.08
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.05
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	99.05
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.05
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.01
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	98.99
PRK12377	248	putative replication protein; Provisional	98.97
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	98.97
KOG0482	721	consensus DNA replication licensing factor, MCM7 c	98.97
PRK08116	268	hypothetical protein; Validated	98.94
PF08542	89	Rep_fac_C: Replication factor C C-terminal domain;	98.92
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.91
PRK08181	269	transposase; Validated	98.89
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.88
PRK04841	903	transcriptional regulator MalT; Provisional	98.88
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.87
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	98.87
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.86
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	98.84
PF05729	166	NACHT: NACHT domain	98.84
PRK09862	506	putative ATP-dependent protease; Provisional	98.82
PRK06526	254	transposase; Provisional	98.82
PRK07952	244	DNA replication protein DnaC; Validated	98.81
PRK04132	846	replication factor C small subunit; Provisional	98.81
smart00382	148	AAA ATPases associated with a variety of cellular	98.78
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.77
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.77
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	98.76
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.74
PF14516	331	AAA_35: AAA-like domain	98.73
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	98.73
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.72
PRK06921	266	hypothetical protein; Provisional	98.71
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.71
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.71
PRK06835	329	DNA replication protein DnaC; Validated	98.68
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.68
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.68
KOG0736	953	consensus Peroxisome assembly factor 2 containing	98.66
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.65
PRK08939	306	primosomal protein DnaI; Reviewed	98.62
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.6
PF12169	143	DNA_pol3_gamma3: DNA polymerase III subunits gamma	98.59
PHA00729	226	NTP-binding motif containing protein	98.56
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	98.5
PRK09183	259	transposase/IS protein; Provisional	98.5
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	98.5
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.48
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.47
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.44
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.43
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.36
KOG0481	729	consensus DNA replication licensing factor, MCM5 c	98.34
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.33
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.32
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.31
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.29
PHA02774	613	E1; Provisional	98.26
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	98.21
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.18
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.17
PRK04296	190	thymidine kinase; Provisional	98.16
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	98.11
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	98.11
PRK10536	262	hypothetical protein; Provisional	98.1
PTZ00202	550	tuzin; Provisional	98.06
COG3899	849	Predicted ATPase [General function prediction only	98.05
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.05
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.01
PHA02624	647	large T antigen; Provisional	97.98
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.96
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.95
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.89
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.89
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.88
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.86
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.86
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.84
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	97.82
KOG1808	1856	consensus AAA ATPase containing von Willebrand fac	97.8
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	97.8
PRK13695	174	putative NTPase; Provisional	97.78
PRK15455	644	PrkA family serine protein kinase; Provisional	97.76
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.75
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.71
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.71
PRK14532	188	adenylate kinase; Provisional	97.7
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.7
PRK14974	336	cell division protein FtsY; Provisional	97.69
KOG0479	818	consensus DNA replication licensing factor, MCM3 c	97.68
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.66
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.63
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	97.63
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.61
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.6
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.59
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	97.59
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	97.59
PRK06762	166	hypothetical protein; Provisional	97.58
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.58
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.57
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	97.56
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.55
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	97.55
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	97.55
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.54
PF10923	416	DUF2791: P-loop Domain of unknown function (DUF279	97.53
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.52
smart00487	201	DEXDc DEAD-like helicases superfamily.	97.52
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.5
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.49
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	97.49
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.44
PRK06067	234	flagellar accessory protein FlaH; Validated	97.44
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.42
PRK10875	615	recD exonuclease V subunit alpha; Provisional	97.41
PF00519	432	PPV_E1_C: Papillomavirus helicase; InterPro: IPR00	97.41
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.41
PRK08118	167	topology modulation protein; Reviewed	97.39
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.38
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	97.38
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.38
COG1485	367	Predicted ATPase [General function prediction only	97.37
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.37
PRK14528	186	adenylate kinase; Provisional	97.36
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.34
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.34
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.33
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.33
PF14840	125	DNA_pol3_delt_C: Processivity clamp loader gamma c	97.33
PRK13889	988	conjugal transfer relaxase TraA; Provisional	97.33
PHA02530	300	pseT polynucleotide kinase; Provisional	97.31
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.31
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.31
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.29
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.29
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.28
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.28
PF13479	213	AAA_24: AAA domain	97.27
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.25
COG4178	604	ABC-type uncharacterized transport system, permeas	97.24
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.24
cd01128	249	rho_factor Transcription termination factor rho is	97.23
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.23
TIGR01613	304	primase_Cterm phage/plasmid primase, P4 family, C-	97.22
PRK14531	183	adenylate kinase; Provisional	97.21
PRK00279	215	adk adenylate kinase; Reviewed	97.21
PRK10416	318	signal recognition particle-docking protein FtsY;	97.2
PRK11823	446	DNA repair protein RadA; Provisional	97.2
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	97.19
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.17
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.16
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.16
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.16
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.16
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	97.15
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.15
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.15
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.15
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	97.14
PRK13947	171	shikimate kinase; Provisional	97.14
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.12
CHL00195	489	ycf46 Ycf46; Provisional	97.12
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.11
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	97.11
PRK00131	175	aroK shikimate kinase; Reviewed	97.11
cd03246	173	ABCC_Protease_Secretion This family represents the	97.1
PRK02496	184	adk adenylate kinase; Provisional	97.1
PRK05973	237	replicative DNA helicase; Provisional	97.1
PRK13808	333	adenylate kinase; Provisional	97.09
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.08
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	97.07
PRK13826	1102	Dtr system oriT relaxase; Provisional	97.07
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	97.07
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.06
PRK03839	180	putative kinase; Provisional	97.06
PRK04328	249	hypothetical protein; Provisional	97.06
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.05
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.05
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.05
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.04
PRK00625	173	shikimate kinase; Provisional	97.04
PRK14527	191	adenylate kinase; Provisional	97.04
PRK09354	349	recA recombinase A; Provisional	97.03
PF01443	234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	97.01
PLN02674	244	adenylate kinase	97.01
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.01
PRK07261	171	topology modulation protein; Provisional	97.01
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.0
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.0
PRK14737	186	gmk guanylate kinase; Provisional	97.0
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.99
PRK06547	172	hypothetical protein; Provisional	96.99
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.98
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.98
PF13245	76	AAA_19: Part of AAA domain	96.97
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.96
PRK09376	416	rho transcription termination factor Rho; Provisio	96.95
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.95
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	96.95
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.95
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.95
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.94
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	96.94
PRK10867	433	signal recognition particle protein; Provisional	96.93
TIGR00767	415	rho transcription termination factor Rho. Members	96.92
PRK13948	182	shikimate kinase; Provisional	96.92
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.92
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.91
PRK13949	169	shikimate kinase; Provisional	96.91
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.89
COG1100	219	GTPase SAR1 and related small G proteins [General	96.88
PRK14530	215	adenylate kinase; Provisional	96.88
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	96.87
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.87
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.86
PRK12337	475	2-phosphoglycerate kinase; Provisional	96.85
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.85
PRK14529	223	adenylate kinase; Provisional	96.83
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.82
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	96.82
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.82
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.82
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	96.82
KOG3928	461	consensus Mitochondrial ribosome small subunit com	96.81
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	96.81
PRK14729	300	miaA tRNA delta(2)-isopentenylpyrophosphate transf	96.81
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.81
PRK06217	183	hypothetical protein; Validated	96.81
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.79
PRK06696	223	uridine kinase; Validated	96.79
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	96.77
TIGR01663	526	PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase	96.77
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.77
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.77
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	96.77
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.76
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.75
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.73
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	96.73
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.73
PLN02459	261	probable adenylate kinase	96.73
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	96.71
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.71
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.7
PF09439	181	SRPRB: Signal recognition particle receptor beta s	96.69
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.69
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.69
KOG2383	467	consensus Predicted ATPase [General function predi	96.68
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.66
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.66
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.66
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.64
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.63
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.62
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.62
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	96.62
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.62
PRK12608	380	transcription termination factor Rho; Provisional	96.61
PTZ00088	229	adenylate kinase 1; Provisional	96.61
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.58
PLN02840	421	tRNA dimethylallyltransferase	96.58
TIGR00959	428	ffh signal recognition particle protein. This mode	96.55
PRK07667	193	uridine kinase; Provisional	96.54
TIGR00643	630	recG ATP-dependent DNA helicase RecG.	96.54
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.54

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

Probab=100.00  E-value=5.3e-59  Score=371.51  Aligned_cols=327  Identities=71%  Similarity=1.097  Sum_probs=316.1

Q ss_pred             CC--CCCCCCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCc
Q 020071            1 MA--SSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREA   78 (331)
Q Consensus         1 ~~--~~~~~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~   78 (331)
                      ||  ++.+.+..+++||.+||||..+.|++|+++.+.+|.-..+.|+.||++|.||||+||||.+.++++.+.+..+...
T Consensus         1 ~~~~~~~~~~~~~~l~wVeKYrP~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~   80 (333)
T KOG0991|consen    1 MPEFSEMSKSDKYQLPWVEKYRPSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEA   80 (333)
T ss_pred             CCccccCCccccccchHHHhhCchHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhH
Confidence            56  3347778899999999999999999999999999999999999999999999999999999999999999888889


Q ss_pred             eEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhh
Q 020071           79 VMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPI  158 (331)
Q Consensus        79 ~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l  158 (331)
                      +.++|+++.+|++.++..++.+++...++|.++.++||+||+|.|+..+|++|.++||-++..++|.++||...++..++
T Consensus        81 vLELNASdeRGIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRRtMEiyS~ttRFalaCN~s~KIiEPI  160 (333)
T KOG0991|consen   81 VLELNASDERGIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRRTMEIYSNTTRFALACNQSEKIIEPI  160 (333)
T ss_pred             hhhccCccccccHHHHHHHHHHHHhhccCCCCceeEEEeeccchhhhHHHHHHHHHHHHHcccchhhhhhcchhhhhhhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHH
Q 020071          159 QSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPL  238 (331)
Q Consensus       159 ~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~  238 (331)
                      .|||.+++|..+++.++...+..+++.+++.++++.++.++..+.||.|+++|.||....+.+.++.+.|.++++.+++.
T Consensus       161 QSRCAiLRysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~GDMRQalNnLQst~~g~g~Vn~enVfKv~d~PhP~  240 (333)
T KOG0991|consen  161 QSRCAILRYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQGDMRQALNNLQSTVNGFGLVNQENVFKVCDEPHPL  240 (333)
T ss_pred             HhhhHhhhhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhhccchHHHHHHHHHHHhccccccchhhhhhccCCCChH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHH
Q 020071          239 HVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLL  318 (331)
Q Consensus       239 ~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~  318 (331)
                      .+.+++.++.++++++|++.+.++|+.|++|.+|+..++|.++++.+++...+++++.++-+..+|..|++..|+|.+|+
T Consensus       241 ~v~~ml~~~~~~~~~~A~~il~~lw~lgysp~Dii~~~FRv~K~~~~~E~~rlE~ikeig~thmrI~eGv~s~LQl~gll  320 (333)
T KOG0991|consen  241 LVKKMLQACLKRNIDEALKILAELWKLGYSPEDIITTLFRVVKNMDVAESLRLEFIKEIGLTHMRILEGVNSLLQLSGLL  320 (333)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhHHhHHHhhHhHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999888888899999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q 020071          319 AKLSIVRET  327 (331)
Q Consensus       319 ~~l~~~~~~  327 (331)
                      .++|.+-..
T Consensus       321 a~l~~~~~k  329 (333)
T KOG0991|consen  321 AKLCKVGEK  329 (333)
T ss_pred             HHHHHhccc
Confidence            999987543

>PLN03025 replication factor C subunit; Provisional

Probab=100.00  E-value=4.2e-54  Score=381.39  Aligned_cols=318  Identities=87%  Similarity=1.330  Sum_probs=298.7

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHh
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDV   92 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (331)
                      .||.+||||++|++++||++++..|+.++.+++.||++||||+|+|||++|+++++.+.|.++...++++++++..+.+.
T Consensus         1 ~~w~~kyrP~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~   80 (319)
T PLN03025          1 LPWVEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDV   80 (319)
T ss_pred             CChhhhcCCCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHH
Confidence            48999999999999999999999999999999999999999999999999999999999887777889999998888899


Q ss_pred             HHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCH
Q 020071           93 VRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSD  172 (331)
Q Consensus        93 i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~  172 (331)
                      +++.++.+.........++++++||||+|.++..++++|++++|.++.+++||++||..+++.++++|||..++|++++.
T Consensus        81 vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~  160 (319)
T PLN03025         81 VRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSD  160 (319)
T ss_pred             HHHHHHHHHhccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCH
Confidence            99988887766543334668999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCH
Q 020071          173 EEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKF  252 (331)
Q Consensus       173 ~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~  252 (331)
                      +++..+++.+++++|+.+++++++++++.++||+|.+++.++..+.+.+.|+.+++.++.+...++.++++++++..++.
T Consensus       161 ~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~gDlR~aln~Lq~~~~~~~~i~~~~v~~~~~~~~~~~i~~~i~~~~~~~~  240 (319)
T PLN03025        161 QEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQALNNLQATHSGFGFVNQENVFKVCDQPHPLHVKNIVRNCLKGKF  240 (319)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHcCCCCHHHHHHHHHHHHcCCH
Confidence            99999999999999999999999999999999999999999977666678999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhhhcc
Q 020071          253 DDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAKA  330 (331)
Q Consensus       253 ~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~~~~~  330 (331)
                      ++++.++.+|+..|+++.+|+..+.+.+....+++..+..++..++++++++..|.++.++|+.|+.+++...++.|+
T Consensus       241 ~~a~~~l~~ll~~g~~~~~Il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~l~a~~~~~~~~~~~~~~  318 (319)
T PLN03025        241 DDACDGLKQLYDLGYSPTDIITTLFRVVKNYDMPEFLKLEYLREIGFAHMRICDGVGSLLQLSGLLAKLCLVRETAKA  318 (319)
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999887667888889999999999999999999999999999999999998876

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

Probab=100.00  E-value=8.7e-52  Score=343.40  Aligned_cols=315  Identities=35%  Similarity=0.506  Sum_probs=288.3

Q ss_pred             CCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-CCCceEEeecCCCCC
Q 020071           11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-YREAVMELNASDDRG   89 (331)
Q Consensus        11 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~   89 (331)
                      ....|++||||++|++++||+.++..|.+.+.++..||+|||||||||||+.|++++++++|+. ....+.+.|.++.+|
T Consensus        22 ~~~swteKYrPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderG  101 (346)
T KOG0989|consen   22 KHRSWTEKYRPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERG  101 (346)
T ss_pred             CccchHHHhCCCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccc
Confidence            3344999999999999999999999999999999999999999999999999999999999943 344577889999999


Q ss_pred             hHhHHHHHHHHHhcccCC------CCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccc
Q 020071           90 IDVVRNKIKMFAQKKVTL------PPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCA  163 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~------~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~  163 (331)
                      +..+++.++.+.......      +...++|+|+||+|.|+.++|++|+++||.++.+++||++||+.++++.++.|||+
T Consensus       102 isvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~  181 (346)
T KOG0989|consen  102 ISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQ  181 (346)
T ss_pred             ccchhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHH
Confidence            998898888877754432      23456999999999999999999999999999999999999999999999999999


Q ss_pred             eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccc-hhhhhhhcCCCCHHHHHH
Q 020071          164 IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVN-QENVFKVCDQPHPLHVKN  242 (331)
Q Consensus       164 ~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~-~~~v~~~~~~~~~~~i~~  242 (331)
                      .+.|+++.++.+...|+.++.++|+.+++++++.|++.++||+|+|+..||.++..+..|| .-.+.++.+..+++.+.+
T Consensus       182 KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~GdLR~Ait~Lqsls~~gk~It~~~~~e~~~GvVp~~~l~~  261 (346)
T KOG0989|consen  182 KFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGDLRRAITTLQSLSLLGKRITTSLVNEELAGVVPDEKLLD  261 (346)
T ss_pred             HhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCcHHHHHHHHHHhhccCcccchHHHHHHHhccCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999998888888 555556667999999999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHH
Q 020071          243 MVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-EMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKL  321 (331)
Q Consensus       243 l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l  321 (331)
                      +++.+..+|+.+..+..+++.+.|+++..++..+...+... |+....+.++-..+.+.+.++..+.+..++|-.|....
T Consensus       262 lle~a~S~d~~~~v~~~Rei~~sg~~~~~lmsQLa~vi~~~~g~~d~~k~~~~~kl~~~~~~~~dg~~l~~~L~~L~~~~  341 (346)
T KOG0989|consen  262 LLELALSADTPNTVKRVREIMRSGYSPLQLMSQLAEVIMDIIGLSDEQKAQISLKLFTRDKRLEDGEDLELALKDLLEAE  341 (346)
T ss_pred             HHHHHHccChHHHHHHHHHHHHhccCHHHHHHHHHHHHHhccccchHHHHHHHHHHHhccchhhcchhHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999988775 78888899999999999999999999999999999988


Q ss_pred             HHHH
Q 020071          322 SIVR  325 (331)
Q Consensus       322 ~~~~  325 (331)
                      .+++
T Consensus       342 ~ql~  345 (346)
T KOG0989|consen  342 KQLR  345 (346)
T ss_pred             HHHh
Confidence            8765

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=5.7e-48  Score=353.75  Aligned_cols=313  Identities=22%  Similarity=0.266  Sum_probs=282.2

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .+|+++|||++|+|++||+.++..|.++++.++++| +|||||+|+|||++|+.+++.+.|+..                
T Consensus         5 ~~~~~kyRP~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i   84 (451)
T PRK06305          5 QVSSRKYRPQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEI   84 (451)
T ss_pred             HHHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHH
Confidence            479999999999999999999999999999999999 799999999999999999999988521                


Q ss_pred             ----CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           76 ----REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        76 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                          ..+++++++....+++.+++..+.....+.   .++++||||||+|.++.++++.|++++|+|+++++||+++++.
T Consensus        85 ~~~~~~d~~~i~g~~~~gid~ir~i~~~l~~~~~---~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~  161 (451)
T PRK06305         85 SSGTSLDVLEIDGASHRGIEDIRQINETVLFTPS---KSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEI  161 (451)
T ss_pred             hcCCCCceEEeeccccCCHHHHHHHHHHHHhhhh---cCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCCh
Confidence                235677777666678888887766555543   6789999999999999999999999999999999999999999


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhhh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVFK  230 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~  230 (331)
                      .++.++++|||..++|.+++.+++..|+.++++++|+.+++++++.|+.+++||+|.+++.++++.. ..+.|+.++|.+
T Consensus       162 ~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~gdlr~a~~~Lekl~~~~~~~It~~~V~~  241 (451)
T PRK06305        162 HKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESLYDYVVGLFPKSLDPDSVAK  241 (451)
T ss_pred             HhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999998752 235699999999


Q ss_pred             hcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--------------ccChHhHHHHHHH
Q 020071          231 VCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY--------------EMAEHLKLEFMKE  296 (331)
Q Consensus       231 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~--------------~~~~~~~~~~~~~  296 (331)
                      +++...++.++++++++..++..+++.++.+|...|+++..++..+.++.+.+              .++...+.+++..
T Consensus       242 l~~~~~~~~vf~L~~ai~~~d~~~al~~l~~L~~~g~~~~~iL~~L~~~fR~ll~vk~~~~~~~~a~~~s~~~L~~ii~~  321 (451)
T PRK06305        242 ALGLLSQDSLYTLDEAITTQNYAQALEPVTDAMNSGVAPAHFLHDLTLFFRNILLKQYNKQLSSVATKYSSEQLLEIIDF  321 (451)
T ss_pred             HHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999988877665543              1566778899999


Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHHHHHHHhhh
Q 020071          297 AGFAHMRICDGVGSYLQLCGLLAKLSIVRETA  328 (331)
Q Consensus       297 l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~~~  328 (331)
                      +.+++++|++|.++++.||.++++++.++.+.
T Consensus       322 l~e~d~~lk~~~~~k~~lE~lll~l~~~~~~~  353 (451)
T PRK06305        322 LGESAKHIQLTIFEKTFLETVIIHLIRIYQRP  353 (451)
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999887653

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.6e-47  Score=353.81  Aligned_cols=307  Identities=19%  Similarity=0.253  Sum_probs=277.3

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC------------------
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN------------------   74 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~------------------   74 (331)
                      .|.+||||++|++++||+++++.|.+++.+++++| +||+||+|+|||++|+.+++.++|..                  
T Consensus         2 al~~kyRP~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~   81 (584)
T PRK14952          2 ALYRKYRPATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAP   81 (584)
T ss_pred             cHHHHhCCCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhc
Confidence            36799999999999999999999999999999999 69999999999999999999999842                  


Q ss_pred             ---CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           75 ---YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        75 ---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                         ...+++++++....+++++++++......++   .++++|+||||+|.|+.+++|+|+++||+|+.+++||++|++.
T Consensus        82 ~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~---~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~  158 (584)
T PRK14952         82 NGPGSIDVVELDAASHGGVDDTRELRDRAFYAPA---QSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEP  158 (584)
T ss_pred             ccCCCceEEEeccccccCHHHHHHHHHHHHhhhh---cCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence               1245778888777789999999888877776   6889999999999999999999999999999999999999999


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhC--CCccchhhhh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSG--FRFVNQENVF  229 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--~~~i~~~~v~  229 (331)
                      ++++++|+|||+.+.|.+++.+++.+|+.++++++|+.++++++..+++.++|++|.++++|+++...  .+.||.+++.
T Consensus       159 ~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s~GdlR~aln~Ldql~~~~~~~~It~~~v~  238 (584)
T PRK14952        159 EKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLSVLDQLLAGAADTHVTYQRAL  238 (584)
T ss_pred             HhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCCCCcCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999987543  5689999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-------------------------
Q 020071          230 KVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE-------------------------  284 (331)
Q Consensus       230 ~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~-------------------------  284 (331)
                      ++++....+.++++++++..+|...++.++.+++..|.++..++..+.++++.+-                         
T Consensus       239 ~llg~~~~~~i~~lv~al~~~d~~~al~~l~~l~~~g~d~~~~l~~L~~~~RdLll~k~~~~~~~~~l~~~~~~~~~~l~  318 (584)
T PRK14952        239 GLLGATDVALIDDAVDALAADDAAALFGAIESVIDAGHDPRRFATDLLERFRDLIVLQAVPDAAARGVVDAPEDVLERMR  318 (584)
T ss_pred             HHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcchhhhcccccCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999988877666531                         


Q ss_pred             -----cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHH
Q 020071          285 -----MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSI  323 (331)
Q Consensus       285 -----~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~  323 (331)
                           ++...+.++++.+......++.+.++++.||.++++++.
T Consensus       319 ~qa~~~s~~~L~~~i~~l~~~~~~~~~~~~~rl~LE~llikl~~  362 (584)
T PRK14952        319 EQAARIGLATLTRYAEVVQAGLGEMRGATAPRLLLEVVCARLLL  362 (584)
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHhc
Confidence                 112233467777778888888999999999999999985

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.7e-47  Score=345.98  Aligned_cols=307  Identities=21%  Similarity=0.272  Sum_probs=278.1

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC------------------
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN------------------   74 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~------------------   74 (331)
                      .|+.||||++|+|++||+++++.|.+.+..++++| +||+||+|+|||++|+.+++.++|..                  
T Consensus         2 ~la~KyRP~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~   81 (491)
T PRK14964          2 NLALKYRPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKN   81 (491)
T ss_pred             ChhHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhc
Confidence            58999999999999999999999999999999998 89999999999999999999998742                  


Q ss_pred             -CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCC
Q 020071           75 -YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSK  153 (331)
Q Consensus        75 -~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~  153 (331)
                       ...+++++++.+..+++++++.++.+...|+   +++++|+||||+|.|+.+++|+|++++|+||+++.||++++...+
T Consensus        82 ~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~---~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~K  158 (491)
T PRK14964         82 SNHPDVIEIDAASNTSVDDIKVILENSCYLPI---SSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKK  158 (491)
T ss_pred             cCCCCEEEEecccCCCHHHHHHHHHHHHhccc---cCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHH
Confidence             2457889999888899999999999888887   788999999999999999999999999999999999999999999


Q ss_pred             CChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhhc
Q 020071          154 IIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKVC  232 (331)
Q Consensus       154 l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~~  232 (331)
                      ++++++|||+.+.|.+++.+++..|+.++++++|+.+++++++.|++.++|++|.+++.++++. ...+.||.++|.+++
T Consensus       159 l~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR~alslLdqli~y~~~~It~e~V~~ll  238 (491)
T PRK14964        159 IPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSNNKISEKSVRDLL  238 (491)
T ss_pred             HHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999998875 345689999999999


Q ss_pred             CCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-------------------------cCh
Q 020071          233 DQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE-------------------------MAE  287 (331)
Q Consensus       233 ~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~-------------------------~~~  287 (331)
                      +....+.++++++++.++|..+++.++++|+..| ++..++..+..+++.+.                         ++.
T Consensus       239 g~~~~~~If~L~~aI~~~d~~~Al~~l~~Ll~~g-~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (491)
T PRK14964        239 GCVDKHILEDLVEAILLGDAQSALNVFRELCNTS-NPVIILEGMLQIIYEICYFSITKEIDFLLGEDLITRIKSLKIGST  317 (491)
T ss_pred             ccCCHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHHHHhcCccccccCCHHHHHHHHHHhCCCH
Confidence            9999999999999999999999999999999876 67788877766554320                         223


Q ss_pred             HhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          288 HLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       288 ~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                      ..+.++++.+.+....++...++++++|..+++++.+
T Consensus       318 ~~l~~~~~~l~~~~~~~~~~~~~~~~~e~~~~rl~~~  354 (491)
T PRK14964        318 IFLSRLWQMLLKGIQEVKSSTCVKQAAEMMIIRLCYL  354 (491)
T ss_pred             HHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHhc
Confidence            3445778888999999999999999999999999853

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1e-46  Score=346.59  Aligned_cols=308  Identities=23%  Similarity=0.346  Sum_probs=278.9

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC-----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN-----------------   74 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~-----------------   74 (331)
                      .+|.+||||++|++++||+++.+.|...+++|+++| +|||||+|+|||++|+.+++.+.|..                 
T Consensus         2 ~~l~~KyRP~~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~   81 (535)
T PRK08451          2 QALALKYRPKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSAL   81 (535)
T ss_pred             ccHHHHHCCCCHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHh
Confidence            469999999999999999999999999999999999 59999999999999999999998753                 


Q ss_pred             --CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           75 --YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        75 --~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                        .+.+++++++.+..+++.+++.+......++   .++++|+||||+|.|+.+++++|++++|+||++++||++|+++.
T Consensus        82 ~~~h~dv~eldaas~~gId~IRelie~~~~~P~---~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~  158 (535)
T PRK08451         82 ENRHIDIIEMDAASNRGIDDIRELIEQTKYKPS---MARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPL  158 (535)
T ss_pred             hcCCCeEEEeccccccCHHHHHHHHHHHhhCcc---cCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChh
Confidence              2345777777766788999999877665654   67899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~  231 (331)
                      +++++++|||..++|.|++.+++..|+.++++++|+.+++++++.|++.++||+|.+++.++++.. ..+.||.++|.++
T Consensus       159 kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~GdlR~alnlLdqai~~~~~~It~~~V~~~  238 (535)
T PRK08451        159 KLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLLDQAIIYCKNAITESKVADM  238 (535)
T ss_pred             hCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999987653 3568999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc------cChHhHHHHHHHHHHHHHHHh
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE------MAEHLKLEFMKEAGFAHMRIC  305 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~------~~~~~~~~~~~~l~~~~~~l~  305 (331)
                      ++....+.++++++++..+|...++.++.++  .|.++.+++..+....+..-      .....+.+.+..+.+++..+.
T Consensus       239 lg~~~~~~I~~li~ai~~~d~~~a~~~l~~L--~g~~~~~~l~~l~~~l~~~~~~~~~~~~l~~l~r~~riL~~~k~~l~  316 (535)
T PRK08451        239 LGLLDPSKLEDFFQAILNQDKEKLFELLKEL--EDYEAEMVLDEMMLFLKEKFLSKDSEFSILLYERFFRILSSAKSLLK  316 (535)
T ss_pred             hCCCCHHHHHHHHHHHHhcCHHHHHHHHHHH--HCCCHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998  57999999999888777431      234446788899999999999


Q ss_pred             cCCCchHHHHHHHHHHHHHH
Q 020071          306 DGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       306 ~~~~~~l~l~~l~~~l~~~~  325 (331)
                      .|.+.+++++.++++++...
T Consensus       317 ~g~~~~i~l~~~~~~~~~~~  336 (535)
T PRK08451        317 EGADDGFVLLLMLFKMKEAL  336 (535)
T ss_pred             hCCCcHHHHHHHHHHHHHhc
Confidence            99999999999999999754

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1e-46  Score=353.44  Aligned_cols=315  Identities=22%  Similarity=0.311  Sum_probs=282.8

Q ss_pred             CCCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC---------
Q 020071            6 SSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY---------   75 (331)
Q Consensus         6 ~~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~---------   75 (331)
                      +...++ .+|++||||++|++++||+.+++.|.+.+..|+++| +||+||+|+|||++|+.+++.++|+..         
T Consensus         6 ~~~~~y-~~la~KyRP~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~   84 (598)
T PRK09111          6 AAATPY-RVLARKYRPQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID   84 (598)
T ss_pred             CCCccc-hhHHhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc
Confidence            333444 469999999999999999999999999999999999 899999999999999999999998632         


Q ss_pred             ---------------CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcC
Q 020071           76 ---------------REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSN  140 (331)
Q Consensus        76 ---------------~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~  140 (331)
                                     +.++++++..+..+++++++++......++   +++++||||||+|.|+..++|+|+++||+|++
T Consensus        85 ~cg~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~---~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~  161 (598)
T PRK09111         85 LCGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPV---SARYKVYIIDEVHMLSTAAFNALLKTLEEPPP  161 (598)
T ss_pred             cCcccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchh---cCCcEEEEEEChHhCCHHHHHHHHHHHHhCCC
Confidence                           134667777777789999999988888776   78899999999999999999999999999999


Q ss_pred             CcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hC
Q 020071          141 STRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SG  219 (331)
Q Consensus       141 ~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~  219 (331)
                      +++|||+++...+++++++|||+.+.|.+++.+++..|+.++++++|+.+++++++.|++.++|++|.+.++++++. .+
T Consensus       162 ~~~fIl~tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~g  241 (598)
T PRK09111        162 HVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAHG  241 (598)
T ss_pred             CeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999998764 34


Q ss_pred             CCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-------------cc-
Q 020071          220 FRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-------------EM-  285 (331)
Q Consensus       220 ~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-------------~~-  285 (331)
                      .+.||.++|.++++......++++++++..++..+++..+.+++..|+++..++..+.++++.+             ++ 
T Consensus       242 ~g~It~e~V~~llg~~~~~~if~L~~ai~~gd~~~Al~~l~~l~~~G~~p~~il~~L~~~~r~L~~vK~~~~~a~~~~~~  321 (598)
T PRK09111        242 AGEVTAEAVRDMLGLADRARVIDLFEALMRGDVAAALAEFRAQYDAGADPVVVLTDLAEFTHLVTRLKIVPDAAEDPSLS  321 (598)
T ss_pred             CCCcCHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhccchhhcccCC
Confidence            5689999999999999999999999999999999999999999999999999998887655431             12 


Q ss_pred             --------------ChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          286 --------------AEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       286 --------------~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                                    +...+.++++.+.++++.++.+.|+.+.+|.++++++..
T Consensus       322 p~~~~kl~~~A~~~s~~~L~r~~q~Ll~~~~~vK~~~n~~lalE~lLlrl~~~  374 (598)
T PRK09111        322 EAERTRGAEFAKKLSMRVLSRLWQMLLKGIEEVQGAPRPLAAAEMVLIRLAYA  374 (598)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhccCCCcHHHHHHHHHHHHhh
Confidence                          223346899999999999999999999999999999854

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.9e-47  Score=356.43  Aligned_cols=309  Identities=20%  Similarity=0.272  Sum_probs=280.8

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      +.|.+||||++|++++||+++++.|.+++.+++++| +|||||+|+|||++|+.+++.++|+..                
T Consensus         4 ~~l~~k~RP~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~   83 (576)
T PRK14965          4 LVLARKYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEIT   83 (576)
T ss_pred             HHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHh
Confidence            358899999999999999999999999999999999 699999999999999999999998532                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..+++++++....+++++++++......++   .++++|+||||+|.|+..++|+|+++||+|+++++||++|++++
T Consensus        84 ~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~---~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~  160 (576)
T PRK14965         84 EGRSVDVFEIDGASNTGVDDIRELRENVKYLPS---RSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPH  160 (576)
T ss_pred             cCCCCCeeeeeccCccCHHHHHHHHHHHHhccc---cCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChh
Confidence               345778887777789999999988887776   68899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~  231 (331)
                      +++++|+|||+.+.|.+++.+++..++..+++++|+.++++++..+++.++||+|.+++.++++. ..++.|+.++|..+
T Consensus       161 kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G~lr~al~~Ldqliay~g~~It~edV~~l  240 (576)
T PRK14965        161 KVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTLDQVLAFCGDAVGDDDVAEL  240 (576)
T ss_pred             hhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998874 33457999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-------------c--------------
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-------------E--------------  284 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-------------~--------------  284 (331)
                      ++....+.++++++++..+|..+++.++.++...|.++..++..+.++++.+             +              
T Consensus       241 lG~~~~~~l~~ll~al~~~d~~~al~~l~~l~~~G~~~~~~l~~Ll~~~RdLl~~k~~~~~~~~l~~~~~~~~~~~~~A~  320 (576)
T PRK14965        241 LGVVDRRLLLDISAAVFGRDTRALLEIVERVDEFGYNMRQFCQELIDHLRNLVVLRAVGEPGDLLDLSEAELAELRAQAA  320 (576)
T ss_pred             hCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcCchhhhccCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988887755542             0              


Q ss_pred             -cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          285 -MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       285 -~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                       ++...+..+++.+.+++++|+.+.++++.||.++++++.+
T Consensus       321 ~~s~~~L~~~l~~l~~~~~~lk~~~~~~l~lE~lllkl~~~  361 (576)
T PRK14965        321 AADAADLQRHLTLLLRAEGEMAHASFPRLVLEMALLKMATL  361 (576)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHhhc
Confidence             2233346889999999999999999999999999999974

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=8.4e-47  Score=358.02  Aligned_cols=311  Identities=18%  Similarity=0.251  Sum_probs=278.4

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .+|.+||||++|++++||++++..|++++..++++| +||+||+|+|||++|+.|++.++|...                
T Consensus         4 ~~LaeKyRP~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~   83 (944)
T PRK14949          4 QVLARKWRPATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIA   83 (944)
T ss_pred             hhHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHh
Confidence            489999999999999999999999999999999999 599999999999999999999998521                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ...+++++..+..+++.+++++..+...+.   .++++|+||||+|.|+.+++++|+++||+|+.+++||++|++..
T Consensus        84 ~g~~~DviEidAas~~kVDdIReLie~v~~~P~---~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~  160 (944)
T PRK14949         84 QGRFVDLIEVDAASRTKVDDTRELLDNVQYRPS---RGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQ  160 (944)
T ss_pred             cCCCceEEEeccccccCHHHHHHHHHHHHhhhh---cCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCch
Confidence               123566777666788999999888776664   67899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH-hhCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT-YSGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~-~~~~~~i~~~~v~~~  231 (331)
                      +++++|+|||..+.|.|++.+++..+|++++..+++.++++++..|++.++|++|.++++++.+ +.+.+.++.+.|.++
T Consensus       161 kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~Gd~R~ALnLLdQala~~~~~It~~~V~~l  240 (944)
T PRK14949        161 KLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKAANGSMRDALSLTDQAIAFGGGQVMLTQVQTM  240 (944)
T ss_pred             hchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCcccHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999754 345567999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc------------------------cCh
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE------------------------MAE  287 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~------------------------~~~  287 (331)
                      ++......+..+++.+.++|...++.++..|+..|.++.+|+..|..+++.+-                        ++.
T Consensus       241 lG~iD~~~V~~llksI~~~D~~aaL~~l~~Ll~~G~D~~~ILr~Ll~~lRDill~k~~~~~~~l~i~~e~i~~~a~~~s~  320 (944)
T PRK14949        241 LGSIDEQHVIALLKALTDADIGVLMQTCAQVLAFGADAQEVLRSLLELLHQITLTQFAPAAAQQSLYSEQIRAFAEQLSP  320 (944)
T ss_pred             hCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhccchhhccchHHHHHHHHHhCCH
Confidence            99988888999999999999999999999999999999999999877666431                        122


Q ss_pred             HhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh
Q 020071          288 HLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       288 ~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~  326 (331)
                      ..+..+++.+.++..+|+.+.|++++||.++++++.+..
T Consensus       321 ~~L~~~ie~l~~a~~~L~~n~n~rl~lE~~LLrl~~~~p  359 (944)
T PRK14949        321 EQVQLYYQILLTGRKDLPHAPDPKSGLEMALLRAVAFVP  359 (944)
T ss_pred             HHHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHcCC
Confidence            333577899999999999999999999999999987644

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=9.5e-47  Score=340.05  Aligned_cols=308  Identities=22%  Similarity=0.229  Sum_probs=267.3

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .||.+||||++|++++||++++..|..++.+++++| ++|+||+|+|||++|+.+++.++|...                
T Consensus         6 ~~L~~KyRP~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~   85 (484)
T PRK14956          6 EVLSRKYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEIT   85 (484)
T ss_pred             chhHHHhCCCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHH
Confidence            589999999999999999999999999999999999 799999999999999999999998531                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..+++++++....+++.+++.++.....+.   .++++|+||||+|.++.+++++|++++|+|+.+++||++|+...
T Consensus        86 ~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~---~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~  162 (484)
T PRK14956         86 KGISSDVLEIDAASNRGIENIRELRDNVKFAPM---GGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFH  162 (484)
T ss_pred             ccCCccceeechhhcccHHHHHHHHHHHHhhhh---cCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChh
Confidence               235777887777788899988877766654   57789999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~  231 (331)
                      +++++|+|||+.+.|.+++.+++..++++++.++|+.++++++..|++.++|++|.+++.|+.+. ...+.||.+.|.++
T Consensus       163 kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd~RdAL~lLeq~i~~~~~~it~~~V~~~  242 (484)
T PRK14956        163 KIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFMEQAIVFTDSKLTGVKIRKM  242 (484)
T ss_pred             hccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCChHHHHHHHHHHHHHhCCCCcCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998753 44557999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCH-HHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-------------cChHhH-------
Q 020071          232 CDQPHPLHVKNMVRNVLEGKF-DDACSGLKQLYDLGYSPTDIITTLFRIIKNYE-------------MAEHLK-------  290 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~-~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~-------------~~~~~~-------  290 (331)
                      ++...++.++++++++.++|. .+++.++.+|+..|+++..++..+..+.+.+-             ++...+       
T Consensus       243 lg~~~~~~~~~l~~si~~~d~~~~al~~l~~l~~~G~d~~~~~~~l~~~~r~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  322 (484)
T PRK14956        243 IGYHGIEFLTSFIKSLIDPDNHSKSLEILESLYQEGQDIYKFLWDSIEFTHTLNLIRDSLADRESVNFPKEDLQKMKSDF  322 (484)
T ss_pred             hCCCCHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcccchhhccCCHHHHHHHHHHH
Confidence            999999999999999998775 68999999999999999999988877666531             122221       


Q ss_pred             --------HHHHHHHH----HH-HHHHhcCCCchHHHHHHHHHHHH
Q 020071          291 --------LEFMKEAG----FA-HMRICDGVGSYLQLCGLLAKLSI  323 (331)
Q Consensus       291 --------~~~~~~l~----~~-~~~l~~~~~~~l~l~~l~~~l~~  323 (331)
                              .+++..+.    .. +.+++...++++.+|..+++++.
T Consensus       323 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~s~~~r~~~E~~~~~l~~  368 (484)
T PRK14956        323 ENVDSSKLNFLSGKLFEIYEKIKTIRLRNSFEIKVFTEIQIKKLVE  368 (484)
T ss_pred             HhcCHHHHHHHHHHHHHHHHHHHHhhhccCCCchHHHHHHHHHHhc
Confidence                    22222221    11 34567788999999999999984

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.6e-46  Score=336.34  Aligned_cols=309  Identities=21%  Similarity=0.226  Sum_probs=276.0

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .||++||||++|++++||+++++.|.+.+..++.+| ++|+||+|+|||++|+.+++.+.|...                
T Consensus         4 ~~l~~kyrP~~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~   83 (363)
T PRK14961          4 QILARKWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIE   83 (363)
T ss_pred             HHHHHHhCCCchhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHh
Confidence            589999999999999999999999999999999999 699999999999999999999987421                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..++.++++....+++.+++.+..+...+.   .++++|+||||+|.++..++++|++++|+|+.++.||++|++..
T Consensus        84 ~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~---~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~  160 (363)
T PRK14961         84 KGLCLDLIEIDAASRTKVEEMREILDNIYYSPS---KSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVE  160 (363)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhcCcc---cCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChH
Confidence               134566666555677888888877766664   67789999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~  231 (331)
                      ++.++++|||..++|.|++.+++.+|+..+++++|+.+++++++.++..++||+|.+++.++.+. .+.+.|+.++|.++
T Consensus       161 ~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G~~R~al~~l~~~~~~~~~~It~~~v~~~  240 (363)
T PRK14961        161 KIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINLGKGNINIKNVTDM  240 (363)
T ss_pred             hhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998764 35678999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----c----------------------
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-----E----------------------  284 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-----~----------------------  284 (331)
                      ++...+..++++++++..++..+++.++.++...|+++.+++..+..+++.+     +                      
T Consensus       241 l~~~~~~~i~~l~~ai~~~~~~~~~~~~~~l~~~g~~~~~il~~l~~~~~d~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (363)
T PRK14961        241 LGLLNEKQSFLLTDALLKKDSKKTMLLLNKISSIGIEWENILIEMLRFLHHISMSQSFPKIWNTIFIKNYKNQIQKIAQN  320 (363)
T ss_pred             HCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCchhhcccchHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999999987766642     0                      


Q ss_pred             cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          285 MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       285 ~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                      ++...+..+++.+.++..+++.++|+++++|.+++++...
T Consensus       321 ~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~e~~l~~~~~~  360 (363)
T PRK14961        321 NKKTNIQLCYQILLNGRKELKFAPDQKIGVEMTLLRAINA  360 (363)
T ss_pred             CCHHHHHHHHHHHHHHHHHHccCCCchHHHHHHHHHHHhC
Confidence            1222334778999999999999999999999999999864

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.1e-46  Score=349.02  Aligned_cols=311  Identities=18%  Similarity=0.239  Sum_probs=276.7

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC-----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN-----------------   74 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~-----------------   74 (331)
                      .+|.+||||++|+|++||+++++.|.+++..++++| +||+||+|+|||++|+.+++.++|+.                 
T Consensus         4 ~~l~~kyRP~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~   83 (509)
T PRK14958          4 QVLARKWRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREID   83 (509)
T ss_pred             hhHHHHHCCCCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHh
Confidence            479999999999999999999999999999999999 79999999999999999999999853                 


Q ss_pred             --CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           75 --YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        75 --~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                        ...+++++++.+..+++++++.++.....+.   .++++|+||||+|.|+.+++|+|+++||+||++++||++|+++.
T Consensus        84 ~g~~~d~~eidaas~~~v~~iR~l~~~~~~~p~---~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~  160 (509)
T PRK14958         84 EGRFPDLFEVDAASRTKVEDTRELLDNIPYAPT---KGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHH  160 (509)
T ss_pred             cCCCceEEEEcccccCCHHHHHHHHHHHhhccc---cCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChH
Confidence              1235788888777899999999988777665   67899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~  231 (331)
                      +++++++|||..++|.+++.+++..++.++++++|+.++++++..+++.++|++|.++++++++. .+.+.||.++|.++
T Consensus       161 kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~GslR~al~lLdq~ia~~~~~It~~~V~~~  240 (509)
T PRK14958        161 KLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQSIAYGNGKVLIADVKTM  240 (509)
T ss_pred             hchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhcCCCCcCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998764 34678999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-----------------------cChH
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE-----------------------MAEH  288 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~-----------------------~~~~  288 (331)
                      ++....+.++++++++..+|.+.++..+.+|...|+++..++..+..+++++.                       ++..
T Consensus       241 lg~~~~~~i~~ll~al~~~d~~~~l~~~~~l~~~g~~~~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (509)
T PRK14958        241 LGTIEPLLLFDILEALAAKAGDRLLGCVTRLVEQGVDFSNALADLLSLLHQIAIIQTVPEALIENDSEQLRQLAKLLDRE  320 (509)
T ss_pred             HCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhCccccccchHHHHHHHHHhCCHH
Confidence            99999999999999999999999999999999999999888877766554421                       1222


Q ss_pred             hHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh
Q 020071          289 LKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       289 ~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~  326 (331)
                      .+...+.........++...++++.+|..++++.....
T Consensus       321 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~  358 (509)
T PRK14958        321 DVQLFYQIGLIGQRDLAYSPTPQTGFEMTLLRMLAFYP  358 (509)
T ss_pred             HHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHhcCC
Confidence            22244555566788899999999999999999987654

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.7e-46  Score=354.38  Aligned_cols=309  Identities=24%  Similarity=0.317  Sum_probs=280.2

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .+|++||||++|++++||+++...|.+++.+++++| +|||||+|+|||++|+.+++.+.|...                
T Consensus         5 ~~~~~kyRP~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~   84 (614)
T PRK14971          5 IVSARKYRPSTFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAF   84 (614)
T ss_pred             HHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHH
Confidence            379999999999999999999999999999999999 799999999999999999999987421                


Q ss_pred             ----CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           76 ----REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        76 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                          +.++.++++.+..+++++++.+..+...++   +++++|+||||+|.|+.+++++|+++||+||.+++||++++..
T Consensus        85 ~~~~~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~---~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~  161 (614)
T PRK14971         85 NEQRSYNIHELDAASNNSVDDIRNLIEQVRIPPQ---IGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEK  161 (614)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhhCcc---cCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCc
Confidence                356778888777778899999988887776   7889999999999999999999999999999999999999999


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFK  230 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~  230 (331)
                      .++.++|+|||.+++|.+++.+++..|+.+++.++|+.+++++++.|+..++||+|.++++++++. ..++.|+.+++.+
T Consensus       162 ~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~gdlr~al~~Lekl~~y~~~~It~~~V~~  241 (614)
T PRK14971        162 HKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSIFDQVVSFTGGNITYKSVIE  241 (614)
T ss_pred             hhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCccHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999998864 2233499999999


Q ss_pred             hcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc------------c--------------
Q 020071          231 VCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY------------E--------------  284 (331)
Q Consensus       231 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~------------~--------------  284 (331)
                      .+....++.+|++++++..++..+++..+.+|+..|+++..|+..+.++++.+            +              
T Consensus       242 ~l~~~~~~~iF~L~dai~~~~~~~al~ll~~Ll~~g~~~~~iL~~L~~~fRdlL~~K~~~~~~ll~v~~~~~~~~~~qa~  321 (614)
T PRK14971        242 NLNILDYDYYFRLTDALLAGKVSDSLLLFDEILNKGFDGSHFITGLASHFRDLLVCKDAATLQLLEVGESIRQRYLEQAQ  321 (614)
T ss_pred             HhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcccccccccCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999998887755542            0              


Q ss_pred             -cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          285 -MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       285 -~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                       ++...+.++++.+.++++++++|.|.+++||.++++++.+
T Consensus       322 ~~s~~~L~~~l~~l~e~d~~lK~~~n~~l~lE~lllkL~~~  362 (614)
T PRK14971        322 KCPMSFLYRALKLCNQCDLNYRASKNKRLLVELTLIQLAQL  362 (614)
T ss_pred             hCCHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHhcc
Confidence             2333446889999999999999999999999999999976

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=3.4e-46  Score=343.15  Aligned_cols=312  Identities=22%  Similarity=0.279  Sum_probs=279.4

Q ss_pred             CCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-------------
Q 020071           10 AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-------------   75 (331)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-------------   75 (331)
                      ++-.||..||||++|+|++||++++..|...+.+++.+| +||+||+|+|||++|+.+++.++|...             
T Consensus         6 ~~y~~la~kyRP~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C   85 (507)
T PRK06645          6 NQYIPFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQC   85 (507)
T ss_pred             ccccchhhhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCC
Confidence            344699999999999999999999999999999999988 899999999999999999999988521             


Q ss_pred             ----------CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEE
Q 020071           76 ----------REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFA  145 (331)
Q Consensus        76 ----------~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I  145 (331)
                                ..+++++++.+..+++++++.++.....++   +++++|+||||+|.++..++++|++++|+|+++++||
T Consensus        86 ~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~---~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI  162 (507)
T PRK06645         86 TNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPL---QGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFI  162 (507)
T ss_pred             hHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccc---cCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEE
Confidence                      236777887777789999999998888876   7889999999999999999999999999999999999


Q ss_pred             EeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh----CCC
Q 020071          146 LACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS----GFR  221 (331)
Q Consensus       146 ~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~----~~~  221 (331)
                      ++++...+++++++|||+.+.|.+++.+++..|++.+++++|+.+++++++.|++.++||+|.++++++++..    ..+
T Consensus       163 ~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~~~~  242 (507)
T PRK06645        163 FATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAKSDN  242 (507)
T ss_pred             EEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998742    234


Q ss_pred             ccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc---c--------------
Q 020071          222 FVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY---E--------------  284 (331)
Q Consensus       222 ~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~---~--------------  284 (331)
                      .||.++|.++++...++.+|++++++.++|..+++..+++|+..|+++..++..+..+++.+   .              
T Consensus       243 ~It~~~V~~llg~~~~~~if~L~~ai~~~d~~~Al~~l~~L~~~g~~~~~~l~~l~~~~~~l~~~k~~~~~~~~~~~~~~  322 (507)
T PRK06645        243 IISPQVINQMLGLVDSSVIIEFVEYIIHRETEKAINLINKLYGSSVNLEIFIESVSDFIAYLNKVKMLPNYSLPIYESFN  322 (507)
T ss_pred             CcCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhccccccccchhHH
Confidence            79999999999999999999999999999999999999999999999999987655533321   0              


Q ss_pred             ---------cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          285 ---------MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       285 ---------~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                               ++...+..+++.+.+....++...++.+.+|..+++++..
T Consensus       323 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~l~r~~~~  371 (507)
T PRK06645        323 DRTKSILDKISLPHLSILWQIYNKGVGEIKISYNQLTETEMLVIKSIYS  371 (507)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHHh
Confidence                     1223345888888999999999999999999999999853

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.5e-46  Score=362.58  Aligned_cols=310  Identities=20%  Similarity=0.269  Sum_probs=277.8

Q ss_pred             CCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC---------------
Q 020071           11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN---------------   74 (331)
Q Consensus        11 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~---------------   74 (331)
                      |.+.|.+||||++|++++||+++++.|.+++.+++++| +||+||+|+|||++|+.|++.++|..               
T Consensus         1 ~~~~l~~KyRP~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~   80 (824)
T PRK07764          1 MALALYRRYRPATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVA   80 (824)
T ss_pred             CchhHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHH
Confidence            56779999999999999999999999999999999999 79999999999999999999999842               


Q ss_pred             ------CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEee
Q 020071           75 ------YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus        75 ------~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~  148 (331)
                            ...++++++.....++++++++.+.....+.   .++++|+||||+|.|+...+|+|+++||+++.+++|||+|
T Consensus        81 ~~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~---~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~t  157 (824)
T PRK07764         81 LAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPA---ESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFAT  157 (824)
T ss_pred             HHcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchh---cCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence                  1245677887777789999998777666654   6789999999999999999999999999999999999999


Q ss_pred             CCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh--CCCccchh
Q 020071          149 NVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS--GFRFVNQE  226 (331)
Q Consensus       149 ~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~--~~~~i~~~  226 (331)
                      ++.++++++|+|||+.+.|.+++.+++.+||.++++++|+.++++++..+++.++||+|.++++|+++..  +.+.||.+
T Consensus       158 t~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~IT~e  237 (824)
T PRK07764        158 TEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVTYE  237 (824)
T ss_pred             CChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999998863  35679999


Q ss_pred             hhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc----------------------
Q 020071          227 NVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE----------------------  284 (331)
Q Consensus       227 ~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~----------------------  284 (331)
                      ++.++++......++++++++..+|...++.++.+|+..|+++..++..+.++++.+-                      
T Consensus       238 ~V~allg~~~~~~I~~lidAL~~~D~a~al~~l~~Li~~G~dp~~~L~~LL~~fRDLL~vka~~~~~~~~l~~~p~d~~~  317 (824)
T PRK07764        238 RAVALLGVTDSALIDEAVDALAAGDGAALFGTVDRVIEAGHDPRRFAEDLLERLRDLIVLQAVPDAAERGLVDAPADQLD  317 (824)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCcchhhhhccCCHHHHH
Confidence            9999999999999999999999999999999999999999999888887777555420                      


Q ss_pred             --------cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHH
Q 020071          285 --------MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSI  323 (331)
Q Consensus       285 --------~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~  323 (331)
                              ++...+.++++.+.++...++.+.+++|.+|.|+++++.
T Consensus       318 ~L~~qA~~~s~~~L~r~ie~l~ea~~~lrgn~nprL~LElLllrLll  364 (824)
T PRK07764        318 RMRAQAQRLGPAELTRAADVVNDGLTEMRGATSPRLLLELLCARMLL  364 (824)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHh
Confidence                    112223477889999999999999999999999999983

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.8e-46  Score=340.96  Aligned_cols=309  Identities=21%  Similarity=0.259  Sum_probs=277.9

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-----------------
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-----------------   75 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-----------------   75 (331)
                      .++++|||++|++++||+.+++.|.+++.+++.+| ++||||+|+|||++|+.+++.+.|+..                 
T Consensus         5 ~l~~k~RP~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c   84 (397)
T PRK14955          5 VIARKYRPKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGEC   84 (397)
T ss_pred             HHHHhcCCCcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCC
Confidence            58999999999999999999999999999999999 899999999999999999999998521                 


Q ss_pred             ----------CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEE
Q 020071           76 ----------REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFA  145 (331)
Q Consensus        76 ----------~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I  145 (331)
                                +.+++.+++....+++++++..+.....++   +++++++||||+|.++.+.++.|++++|+|++.++||
T Consensus        85 ~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~---~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~I  161 (397)
T PRK14955         85 ESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQ---KGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFI  161 (397)
T ss_pred             HHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchh---cCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEE
Confidence                      124666776666678899998888877776   7889999999999999999999999999999999999


Q ss_pred             EeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh------C
Q 020071          146 LACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS------G  219 (331)
Q Consensus       146 ~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~------~  219 (331)
                      ++++...++.+++++||.+++|.|++.+++..|+..+++++++.+++++++.|+..++||+|.+.+.++++..      .
T Consensus       162 l~t~~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~  241 (397)
T PRK14955        162 FATTELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEG  241 (397)
T ss_pred             EEeCChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCC
Confidence            9998889999999999999999999999999999999999999999999999999999999999999998632      3


Q ss_pred             CCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc---------c------
Q 020071          220 FRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY---------E------  284 (331)
Q Consensus       220 ~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~---------~------  284 (331)
                      .+.|+.++|.+++....++++|++++++..++..+++.++.+|...|+++..|+..+.++.+.+         +      
T Consensus       242 ~~~It~~~v~~~v~~~~~~~vf~l~~ai~~~~~~~al~~~~~l~~~~~~~~~iL~ll~~~~R~ll~~k~~~~~~~~~~~~  321 (397)
T PRK14955        242 EGSIRYDKVAELLNYIDDEHFFAVTDAVADGDAVAMLDVAQFVIRNGYDEQDFLEKLIEHLRNFLVVHNLRSTRLVERPD  321 (397)
T ss_pred             CCccCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhccccccccCCH
Confidence            4689999999999999999999999999999999999999999999999999988887765542         1      


Q ss_pred             ------------cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          285 ------------MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       285 ------------~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                                  ++...+.++++.+.++++++++|+|+++.+|.|+++++..-
T Consensus       322 ~~~~~~~~~a~~~s~~~L~~~l~~l~e~d~~lK~~~~~~l~lE~lll~l~~~~  374 (397)
T PRK14955        322 AVRERYERDAAKFSPEVIMQMTDLLLQTQKELKFQFEYQFRFELALLKLIEIG  374 (397)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHhhC
Confidence                        22223358899999999999999999999999999999765

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=100.00  E-value=9.7e-46  Score=329.92  Aligned_cols=314  Identities=47%  Similarity=0.758  Sum_probs=284.0

Q ss_pred             CCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC
Q 020071           10 AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG   89 (331)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (331)
                      .++.||.+||||.+|++++|+++++..+..+++.+..||++||||+|+|||++++.+++.+.+..+...++++++.+..+
T Consensus         2 ~~~~~w~~kyrP~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~   81 (319)
T PRK00440          2 MMEEIWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERG   81 (319)
T ss_pred             CccCccchhhCCCcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccc
Confidence            46779999999999999999999999999999999999999999999999999999999998887777788888776666


Q ss_pred             hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecC
Q 020071           90 IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSR  169 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~  169 (331)
                      .+.+.+.+..+..... +...++++|+|||+|.++.+.++.|+++++.++.++++|++++...++.+++++||.+++|.|
T Consensus        82 ~~~~~~~i~~~~~~~~-~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~  160 (319)
T PRK00440         82 IDVIRNKIKEFARTAP-VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSP  160 (319)
T ss_pred             hHHHHHHHHHHHhcCC-CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCC
Confidence            6666666665554321 112468999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHc
Q 020071          170 LSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLE  249 (331)
Q Consensus       170 ~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~  249 (331)
                      ++.+++..+++.+++++|+.+++++++.+++.++||+|.+++.++.++..++.||.++|..++....+..++++++++..
T Consensus       161 l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~~~~it~~~v~~~~~~~~~~~i~~l~~~~~~  240 (319)
T PRK00440        161 LKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIREMIELALN  240 (319)
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCCHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999998777778999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          250 GKFDDACSGLKQLY-DLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       250 ~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                      ++..+++..+++|+ ..|.++.+|+..+.+.+...+++...+.+++..+.++++++++|.++.++||.|+++++.+
T Consensus       241 ~~~~~a~~~l~~ll~~~g~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~~~~~d~~~k~g~~~~~~le~~i~~~~~~  316 (319)
T PRK00440        241 GDFTEAREKLRDLMIDYGLSGEDIIKQIHREVWSLDIPEELKVELIDAIGEADFRITEGANERIQLEALLAKLALL  316 (319)
T ss_pred             CCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHh
Confidence            99999999999987 5899999999888775544457888899999999999999999999999999999999875

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.9e-46  Score=350.67  Aligned_cols=309  Identities=20%  Similarity=0.248  Sum_probs=279.2

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-----------------
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-----------------   75 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-----------------   75 (331)
                      .+++||||++|++++||++++..|++++.+++.+| +||+||+|+|||++|+.+++.++|+..                 
T Consensus         5 ~l~~kyRP~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C   84 (620)
T PRK14954          5 VIARKYRPSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGEC   84 (620)
T ss_pred             HHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccC
Confidence            57899999999999999999999999999999999 899999999999999999999999431                 


Q ss_pred             ----------CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEE
Q 020071           76 ----------REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFA  145 (331)
Q Consensus        76 ----------~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I  145 (331)
                                +.++.++++....+++++++.++.+...++   +++++||||||+|.++..++++|+++||+|+.+++||
T Consensus        85 ~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~---~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~I  161 (620)
T PRK14954         85 ESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQ---KGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFI  161 (620)
T ss_pred             HHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhh---cCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEE
Confidence                      235666766666678999999888877776   7899999999999999999999999999999999999


Q ss_pred             EeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhC------
Q 020071          146 LACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSG------  219 (331)
Q Consensus       146 ~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~------  219 (331)
                      +++++..+++++|+|||+.++|.+++.+++..|+.++++++|+.+++++++.|++.++||+|.++++++++...      
T Consensus       162 L~t~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I~~eal~~La~~s~Gdlr~al~eLeKL~~y~~~~~~  241 (620)
T PRK14954        162 FATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDAQSILDQVIAFSVGSEA  241 (620)
T ss_pred             EEeCChhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999987432      


Q ss_pred             CCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc---------c------
Q 020071          220 FRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY---------E------  284 (331)
Q Consensus       220 ~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~---------~------  284 (331)
                      .+.|+.++|.+++....++.+|++++++..++..+++.++.+|...|+++..|+..+.++.+.+         +      
T Consensus       242 ~~~It~~~V~~lv~~~~e~~iF~L~dai~~~d~~~al~~l~~Ll~~ge~p~~iL~lL~~~fRdLL~vK~~~~~~l~~~~~  321 (620)
T PRK14954        242 EKVIAYQGVAELLNYIDDEQFFDVTDAIAENDAVKMLEVARFVIDNGYDEQDFLEKLIEHFRNFLVLYNLRSTRLIERPE  321 (620)
T ss_pred             CCccCHHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhccccccccCCH
Confidence            5679999999999999999999999999999999999999999999999999999988866642         0      


Q ss_pred             ------------cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          285 ------------MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       285 ------------~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                                  ++...+.+++..+.+++++|+++.+.++.+|.++++++++.
T Consensus       322 ~v~~~l~~qA~~fs~~~L~~~l~~l~e~d~~LKtn~n~~l~lEllLlkl~~~~  374 (620)
T PRK14954        322 SVKERYQQSAGGLTPAAVMQMTDFLMKTQGELKFQFEYQFRFELALLRLIELV  374 (620)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHhcc
Confidence                        11122347799999999999999999999999999999865

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=3.5e-46  Score=350.98  Aligned_cols=310  Identities=24%  Similarity=0.339  Sum_probs=278.7

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .+|.++|||++|++++||+++++.|.+++..++++| +||+||+|+|||++|+.+++.+.|...                
T Consensus         6 ~~l~~KyRP~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~   85 (725)
T PRK07133          6 KALYRKYRPKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNN   85 (725)
T ss_pred             hhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcC
Confidence            589999999999999999999999999999999999 699999999999999999999998532                


Q ss_pred             CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCC
Q 020071           76 REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKII  155 (331)
Q Consensus        76 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~  155 (331)
                      ..+++++++....+++++++++..+...|+   .++++|+||||+|.|+..++++|+++||+||.+++||++|+.+.+++
T Consensus        86 ~~Dvieidaasn~~vd~IReLie~~~~~P~---~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl  162 (725)
T PRK07133         86 SLDIIEMDAASNNGVDEIRELIENVKNLPT---QSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIP  162 (725)
T ss_pred             CCcEEEEeccccCCHHHHHHHHHHHHhchh---cCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhh
Confidence            124455666555678899999998888886   78899999999999999999999999999999999999999999999


Q ss_pred             hhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhhcCC
Q 020071          156 EPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKVCDQ  234 (331)
Q Consensus       156 ~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~~~~  234 (331)
                      ++++|||+.+.|.|++.+++..++..++.++|+.+++++++.+++.++|++|.+++.++.+. .+.+.|+.+++.++++.
T Consensus       163 ~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~GslR~AlslLekl~~y~~~~It~e~V~ellg~  242 (725)
T PRK07133        163 LTILSRVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEQVSIFGNNKITLKNVEELFGL  242 (725)
T ss_pred             HHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999999999999999999998764 23456999999999999


Q ss_pred             CCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----------------------ccChHhHH
Q 020071          235 PHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-----------------------EMAEHLKL  291 (331)
Q Consensus       235 ~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-----------------------~~~~~~~~  291 (331)
                      ...+.++++++++..++...++.++.+|...|.++..++..+..+.+.+                       .++...+.
T Consensus       243 ~~~e~If~Ll~aI~~kd~~~aL~~l~~L~~~ged~~~iL~~Ll~~~RDlLl~k~~~~~~ll~~~d~~~l~~~~~s~~~l~  322 (725)
T PRK07133        243 VSNENLINLLNLLYSKDIKEVLNILNQIKEQGIDPELLLISLINLVKEFIIFNKTKDNSLLEYYSEEDLEKLKIDDDFAY  322 (725)
T ss_pred             CCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCchhhhccCCHHHHHHhcCCHHHHH
Confidence            9999999999999999999999999999999999999998877765542                       12233445


Q ss_pred             HHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          292 EFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       292 ~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      .++..+.++..+++.++++++++|.++++++.+.
T Consensus       323 ~~le~i~~~~~~L~~n~n~~l~lE~lll~L~~~~  356 (725)
T PRK07133        323 KFIEILFDLLKDLKISDNPNDTLEILIIKLLALS  356 (725)
T ss_pred             HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhcC
Confidence            7789999999999999999999999999998754

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=4.9e-46  Score=349.07  Aligned_cols=308  Identities=27%  Similarity=0.359  Sum_probs=281.8

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      ..|..+|||++|++++||+++.+.|.+++..++.+| +|||||+|+|||++|+.+++.++|...                
T Consensus         4 ~al~~k~rP~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~   83 (559)
T PRK05563          4 QALYRKWRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAIT   83 (559)
T ss_pred             HHHHHHhCCCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHh
Confidence            468899999999999999999999999999999999 799999999999999999999998531                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..+++++++....+++.+++.+......|.   .++++|+||||+|.|+..++++|++++|+||.+++||++|+.+.
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~---~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~  160 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPS---EAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPH  160 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHhhCcc---cCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChh
Confidence               356788888777889999999988887776   78899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~  231 (331)
                      +++++|+|||+.+.|.+++.+++..|+..+++++|+.+++++++.+++.++|++|.+++.++.+. .+.+.||.++|.++
T Consensus       161 ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G~~R~al~~Ldq~~~~~~~~It~~~V~~v  240 (559)
T PRK05563        161 KIPATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSILDQAISFGDGKVTYEDALEV  240 (559)
T ss_pred             hCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998764 24567999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc---------------------------
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE---------------------------  284 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~---------------------------  284 (331)
                      ++....+.++++++++..+|..+++..+.+++..|.++..++..+.++++.+-                           
T Consensus       241 lg~~~~~~i~~l~~al~~~d~~~al~~l~~l~~~g~d~~~~l~~L~~~~Rdll~~k~~~~~~~~~~~~~~~~~~~~~a~~  320 (559)
T PRK05563        241 TGSVSQEALDDLVDAIVEGDVAKALKILEELLDEGKDPNRFIEDLIYYLRDLLLVKTSPELEILDESTENDELFKELSEK  320 (559)
T ss_pred             hCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCcccccccCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999988877655430                           


Q ss_pred             cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHH
Q 020071          285 MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSI  323 (331)
Q Consensus       285 ~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~  323 (331)
                      ++...+.++++.+.+++++++.+.++++.+|.++++++.
T Consensus       321 ~s~~~L~~~i~~L~~~~~~lk~~~~~~l~lE~lllkl~~  359 (559)
T PRK05563        321 LDIERLYRMIDILNDAQQQIKWTNQPRIYLEVALVKLCE  359 (559)
T ss_pred             CCHHHHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHh
Confidence            233345688999999999999999999999999999998

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=3.8e-46  Score=347.43  Aligned_cols=310  Identities=20%  Similarity=0.252  Sum_probs=275.6

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC------C----------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN------Y----------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~------~----------   75 (331)
                      .+|.+||||++|++++||+++++.|.+++.+++++| +||+||+|+|||++++.|++.++|+.      |          
T Consensus         4 ~vLarKYRPqtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~   83 (830)
T PRK07003          4 QVLARKWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREID   83 (830)
T ss_pred             HhHHHHhCCCcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHh
Confidence            469999999999999999999999999999999999 69999999999999999999999852      1          


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..++++++..+.+++++++++++.....+.   .++++|+||||+|.|+...+|+|+++||+|+.+++||++|++..
T Consensus        84 ~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~---~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~  160 (830)
T PRK07003         84 EGRFVDYVEMDAASNRGVDEMAALLERAVYAPV---DARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQ  160 (830)
T ss_pred             cCCCceEEEecccccccHHHHHHHHHHHHhccc---cCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChh
Confidence               135788888877889999999988776665   57899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH-hhCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT-YSGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~-~~~~~~i~~~~v~~~  231 (331)
                      +++++|+|||+.+.|.+++.+++.++|++++.++++.++++++..|++.++|++|.++++++.. ..+.+.|+.+.|..+
T Consensus       161 KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~GsmRdALsLLdQAia~~~~~It~~~V~~~  240 (830)
T PRK07003        161 KIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSLTDQAIAYSANEVTETAVSGM  240 (830)
T ss_pred             hccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999998654 345567999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-------------------------ccC
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-------------------------EMA  286 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-------------------------~~~  286 (331)
                      ++....+.++++++.+.++|..+++..+.+|...|.+...++..+..++.++                         .++
T Consensus       241 LG~~d~~~i~~ll~aL~~~d~~~~l~~~~~l~~~g~~~~~~l~dLl~~l~~~~~~q~~~~~~~~~~~e~~~~~~~a~~~s  320 (830)
T PRK07003        241 LGALDQTYMVRLLDALAAGDGPEILAVADEMALRSLSFSTALQDLASLLHRIAWAQFAPASVLDEWPEAADLRRFAELLS  320 (830)
T ss_pred             hCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCccccccccchHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999988776666655443321                         023


Q ss_pred             hHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          287 EHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       287 ~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      ...+..+++.+......++...++++.+|+.++++..+.
T Consensus       321 ~~~l~~~~qi~l~g~~el~~ap~~~~~~Em~llr~l~~~  359 (830)
T PRK07003        321 PEQVQLFYQIATVGRGELGLAPDEYAGFTMTLLRMLAFE  359 (830)
T ss_pred             HHHHHHHHHHHHhHHHHhhcCCCHHHHHHHHHHHHhcCC
Confidence            333457788888999999999999999999999998653

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1e-45  Score=341.65  Aligned_cols=307  Identities=26%  Similarity=0.322  Sum_probs=280.4

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC------------------C
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN------------------Y   75 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~------------------~   75 (331)
                      +.+||||++|++++||++++..|.+++.+++++| +|||||+|+|||++|+.+++.+.|.+                  .
T Consensus         4 l~~KyRP~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~   83 (504)
T PRK14963          4 LYQRARPITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGA   83 (504)
T ss_pred             HHHhhCCCCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCC
Confidence            4599999999999999999999999999999999 59999999999999999999998742                  2


Q ss_pred             CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCC
Q 020071           76 REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKII  155 (331)
Q Consensus        76 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~  155 (331)
                      +.++.++++.+..+++.+++........++   .+++++|||||+|.++...+++|++++++|+.+++||++++.+.++.
T Consensus        84 h~dv~el~~~~~~~vd~iR~l~~~~~~~p~---~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~  160 (504)
T PRK14963         84 HPDVLEIDAASNNSVEDVRDLREKVLLAPL---RGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMP  160 (504)
T ss_pred             CCceEEecccccCCHHHHHHHHHHHhhccc---cCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCC
Confidence            346788888777788889988777776665   67899999999999999999999999999999999999999999999


Q ss_pred             hhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCC
Q 020071          156 EPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQP  235 (331)
Q Consensus       156 ~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~  235 (331)
                      ++++|||..++|.|++.+++..|+.++++++|+.+++++++.|++.++||+|.+++.|+++....+.||.++|.++++..
T Consensus       161 ~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~GdlR~aln~Lekl~~~~~~It~~~V~~~l~~~  240 (504)
T PRK14963        161 PTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLALGTPVTRKQVEEALGLP  240 (504)
T ss_pred             hHHhcceEEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999999999999999999999987666689999999999999


Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-------------cccChHhHHHHHHHHHHHHH
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-------------YEMAEHLKLEFMKEAGFAHM  302 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-------------~~~~~~~~~~~~~~l~~~~~  302 (331)
                      ..+.++++++++.+++..+|+.++.+|+..|+++..|+..+.+..++             +.+++.....+++.+.+.++
T Consensus       241 ~~~~if~Li~al~~~d~~~Al~~l~~Ll~~G~~~~~Il~~L~~~~r~ll~~k~~~~~~~~~~~~~~~~~~~l~~l~~~~~  320 (504)
T PRK14963        241 PQERLRGIAAALAQGDAAEALSGAAQLYRDGFAARTLVEGLLEAFRAALYAELGLGGGPRLEGAEPRLLAAMTALDEQME  320 (504)
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhccCcccccccCcHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999988873             22467778899999999999


Q ss_pred             HHhcCCCchHHHHHHHHHHHHHH
Q 020071          303 RICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       303 ~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      ++..+.+ +..+|..+++++...
T Consensus       321 ~~~~~~~-~~~l~~~l~~~~~~~  342 (504)
T PRK14963        321 RFARRSD-ALSLELALLHALLAL  342 (504)
T ss_pred             HHHhccc-hhHHHHHHHHHHhhh
Confidence            9988886 788999999998543

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.1e-45  Score=346.24  Aligned_cols=311  Identities=20%  Similarity=0.281  Sum_probs=276.8

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .+|++||||++|++++||++++..|.+.+..++++| +||+||+|+|||++|+.|++.++|...                
T Consensus         4 ~~La~KyRP~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~   83 (647)
T PRK07994          4 QVLARKWRPQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIE   83 (647)
T ss_pred             hhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHH
Confidence            589999999999999999999999999999999999 699999999999999999999998521                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..+++++++.+..++++++++++.+...+.   .++++|+||||+|.|+..++|+|+++||+||.+++||++|+++.
T Consensus        84 ~g~~~D~ieidaas~~~VddiR~li~~~~~~p~---~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~  160 (647)
T PRK07994         84 QGRFVDLIEIDAASRTKVEDTRELLDNVQYAPA---RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  160 (647)
T ss_pred             cCCCCCceeecccccCCHHHHHHHHHHHHhhhh---cCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCcc
Confidence               135677787766788999999988877765   68899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~  231 (331)
                      +++++|+|||..+.|.+++.+++..+|.+++.++++.++++++..|++.++|++|.+++.++.+. .+.+.|+.+++..+
T Consensus       161 kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s~Gs~R~Al~lldqaia~~~~~it~~~v~~~  240 (647)
T PRK07994        161 KLPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARAADGSMRDALSLTDQAIASGNGQVTTDDVSAM  240 (647)
T ss_pred             ccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999997653 45567999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc--------------------------c
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE--------------------------M  285 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~--------------------------~  285 (331)
                      .+....+.++++++++..+|...++.++.+|...|.+...++..+..+++.+-                          +
T Consensus       241 lg~~d~~~~~~ll~al~~~d~~~~l~~~~~l~~~g~d~~~~L~~l~~~lrdil~~q~~~~~~~~~~~d~~~~l~~la~~~  320 (647)
T PRK07994        241 LGTLDDDQALSLLEALVEGDGERVMALINQLAERGPDWEGLLVELLELLHRIAMAQLLPAALDNDMADIELRLRELARTL  320 (647)
T ss_pred             HccCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhccchhcccchhHHHHHHHHHHhC
Confidence            98888888999999999999999999999999999998877776655444320                          2


Q ss_pred             ChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh
Q 020071          286 AEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       286 ~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~  326 (331)
                      ++..+...+..+.++..+|..+.|+++.+|.+++++.....
T Consensus       321 s~~~l~~~~q~~~~~~~~L~~n~n~~l~lE~~llr~~~~~P  361 (647)
T PRK07994        321 PPEDVQLYYQTLLIGRKDLPLAPDRRMGVEMTLLRMLAFHP  361 (647)
T ss_pred             CHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhcCC
Confidence            33334467888999999999999999999999999987765

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.2e-45  Score=340.95  Aligned_cols=311  Identities=18%  Similarity=0.224  Sum_probs=278.5

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC----------------
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN----------------   74 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~----------------   74 (331)
                      -.+|.+||||++|++++||+++.+.|.+++.+++++| +||+||+|+|||++|+.+++.++|..                
T Consensus         2 Y~~LarKyRPktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I   81 (702)
T PRK14960          2 YQVLARKYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAV   81 (702)
T ss_pred             chhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHH
Confidence            3579999999999999999999999999999999999 69999999999999999999999842                


Q ss_pred             ---CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           75 ---YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        75 ---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                         ...+++++++.+..+++++++.+......+.   .++++|+||||+|.|+..++++|++++|+|+.++.||++|+++
T Consensus        82 ~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~---~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~  158 (702)
T PRK14960         82 NEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPT---QGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDP  158 (702)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHhhhhh---cCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECCh
Confidence               1236788888877789999999888776664   5789999999999999999999999999999999999999999


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFK  230 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~  230 (331)
                      .+++++++|||..+.|.|++.+++..++.++++++|+.++++++..|++.++||+|.+++.++.+. .+.+.|+.++|.+
T Consensus       159 ~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~GdLRdALnLLDQaIayg~g~IT~edV~~  238 (702)
T PRK14960        159 QKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALSLTDQAIAYGQGAVHHQDVKE  238 (702)
T ss_pred             HhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999997653 4567899999999


Q ss_pred             hcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--------------------------c
Q 020071          231 VCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY--------------------------E  284 (331)
Q Consensus       231 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~--------------------------~  284 (331)
                      +++....+.++++++++.+++...++..+.++...|.++..++..+..+++++                          .
T Consensus       239 lLG~~d~e~IfdLldAI~k~d~~~al~~L~el~~~g~d~~~~l~~Ll~~lrdlll~~~~~~~~~~~~~~~~~~~~~la~~  318 (702)
T PRK14960        239 MLGLIDRTIIYDLILAVHQNQREKVSQLLLQFRYQALDVSLVLDQLISTLHELALLQYLPELGLKYSEEINAKILQLSKL  318 (702)
T ss_pred             HhccCCHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999887777765544431                          0


Q ss_pred             cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          285 MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       285 ~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      ++...+..++..+.+....++...++++.+|.++++++.+.
T Consensus       319 ~s~~~l~~~~qi~l~~~~~l~~s~~~r~~lEm~llrl~~~~  359 (702)
T PRK14960        319 ISAQDLQLYYQIACKGRSDLQLAVTQEQGFEMCVLRLLAFR  359 (702)
T ss_pred             CCHHHHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHhCC
Confidence            23334457888888999999999999999999999998763

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=8.6e-46  Score=341.12  Aligned_cols=311  Identities=20%  Similarity=0.240  Sum_probs=276.6

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC-----------C-----
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN-----------Y-----   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~-----------~-----   75 (331)
                      .+|.+||||++|++++||+++++.|.+++.+++++| +||+||+|+|||++|+.|++.++|.+           |     
T Consensus         4 ~vLarKYRPqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~s   83 (700)
T PRK12323          4 QVLARKWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRA   83 (700)
T ss_pred             hhHHHHhCCCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHH
Confidence            579999999999999999999999999999999999 69999999999999999999999842           1     


Q ss_pred             --------CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEe
Q 020071           76 --------REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALA  147 (331)
Q Consensus        76 --------~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~  147 (331)
                              ..++++++..+..++++++++++.....+.   .++++|+||||+|.|+..++|+|+++||+|+.++.||++
T Consensus        84 C~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~---~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILa  160 (700)
T PRK12323         84 CTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPT---AGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILA  160 (700)
T ss_pred             HHHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchh---cCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEE
Confidence                    136778888777889999999988877765   678999999999999999999999999999999999999


Q ss_pred             eCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH-hhCCCccchh
Q 020071          148 CNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT-YSGFRFVNQE  226 (331)
Q Consensus       148 ~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~-~~~~~~i~~~  226 (331)
                      |++..+++++|+|||+.+.|.+++.+++.+++.+++.++++.+++++++.|++.++|++|.++++++.. ..+.+.|+.+
T Consensus       161 Ttep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~A~Gs~RdALsLLdQaia~~~~~It~~  240 (700)
T PRK12323        161 TTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALSLTDQAIAYSAGNVSEE  240 (700)
T ss_pred             eCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcCHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999754 4455679999


Q ss_pred             hhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc----------------------
Q 020071          227 NVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE----------------------  284 (331)
Q Consensus       227 ~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~----------------------  284 (331)
                      .|.++++....+.++++++.+..+|...++..+..+...|.+...++..+...+.++.                      
T Consensus       241 ~V~~~LG~~d~~~i~~Ll~aL~~~d~~~~l~l~~~l~~~G~d~~~~L~dLl~~l~~l~l~q~~~~~~~~~~~~~~~~~~~  320 (700)
T PRK12323        241 AVRGMLGAIDQSYLVRLLDALAAEDGAALLAIADEMAGRSLSFAGALQDLASLLQKIALAQVVPAAVQDDWPEADDIRRL  320 (700)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhCchhcccccchHHHHHHH
Confidence            9999999999999999999999999999999999999999997666655544333210                      


Q ss_pred             ---cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh
Q 020071          285 ---MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       285 ---~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~  326 (331)
                         ++...+...+..+......++...++++.+|+.++++..+..
T Consensus       321 a~~~s~~~l~~~~q~~~~~~~el~~a~~~~~~~Em~llrll~~~p  365 (700)
T PRK12323        321 AGRFDAQEVQLFYQIANLGRSELALAPDEYAGFTMTLLRMLAFRP  365 (700)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHhhCCC
Confidence               233445678888899999999999999999999999987643

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.4e-45  Score=344.80  Aligned_cols=311  Identities=23%  Similarity=0.306  Sum_probs=280.9

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC-----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN-----------------   74 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~-----------------   74 (331)
                      ..|.+||||++|++++||+++++.|.+++..++++| +||+||+|+|||++|+.+++.++|.+                 
T Consensus         4 ~vla~KyRP~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~   83 (618)
T PRK14951          4 LVLARKYRPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQA   83 (618)
T ss_pred             HHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHH
Confidence            479999999999999999999999999999999999 69999999999999999999999852                 


Q ss_pred             -------CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEe
Q 020071           75 -------YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALA  147 (331)
Q Consensus        75 -------~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~  147 (331)
                             ...++++++..+..+++++++.++.....+.   .++++|+||||+|.|+..++|+|++++|+|+.++.||++
T Consensus        84 C~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~---~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~  160 (618)
T PRK14951         84 CRDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPV---QGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLA  160 (618)
T ss_pred             HHHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcc---cCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEE
Confidence                   1235778888777889999999988777775   678999999999999999999999999999999999999


Q ss_pred             eCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchh
Q 020071          148 CNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQE  226 (331)
Q Consensus       148 ~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~  226 (331)
                      |+++.+++++++|||..++|.+++.+++..++++++.++|+.++++++.+|++.++||+|.+++.++++. .+.+.||.+
T Consensus       161 Ttd~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s~GslR~al~lLdq~ia~~~~~It~~  240 (618)
T PRK14951        161 TTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDALSLTDQAIAFGSGQLQEA  240 (618)
T ss_pred             ECCchhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999997653 456789999


Q ss_pred             hhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc----------------------
Q 020071          227 NVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE----------------------  284 (331)
Q Consensus       227 ~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~----------------------  284 (331)
                      +|.++++....+.++++++++..+|...++.++.+|...|+++..++..+..+.+.+-                      
T Consensus       241 ~V~~~Lg~~~~~~i~~LldaL~~~d~~~al~~l~~l~~~G~~~~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  320 (618)
T PRK14951        241 AVRQMLGSVDRSHVFRLIDALAQGDGRTVVETADELRLNGLSAASTLEEMAAVLQRMAVLQAVPQAAAAATDPEAAEVAR  320 (618)
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhCcccccccChHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999988877665421                      


Q ss_pred             ----cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh
Q 020071          285 ----MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       285 ----~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~  326 (331)
                          ++...+..++..+......+....++++.+|+.++++..+..
T Consensus       321 ~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~em~l~r~~~~~~  366 (618)
T PRK14951        321 LAALMPADETQLLYSICLHGRAELGLAPDEYAALTMVLLRLLAFKP  366 (618)
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHhhCCC
Confidence                233334577888889999999999999999999999986543

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=1.7e-45  Score=343.86  Aligned_cols=310  Identities=20%  Similarity=0.212  Sum_probs=279.9

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      ..|..||||++|++++||++++..|.+++.+++++| +|||||+|+|||++|+.+++.+.|...                
T Consensus         4 ~~l~~kyRP~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~   83 (563)
T PRK06647          4 RGTATKRRPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSID   83 (563)
T ss_pred             HHHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHH
Confidence            368999999999999999999999999999999999 799999999999999999999998521                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..+++++++....+++.+++........|+   .++++|+||||+|.|+.+++++|++++|+||++++||++++...
T Consensus        84 ~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~---~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~  160 (563)
T PRK06647         84 NDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPA---SSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVH  160 (563)
T ss_pred             cCCCCCeEEecCcccCCHHHHHHHHHHHHhchh---cCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChH
Confidence               245677776665678889888887777776   78899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~  231 (331)
                      +++++|+|||+.++|.+++.+++..++.+++.++|+.++++++..|++.++||+|.+.++++++. ...+.||.+++.++
T Consensus       161 kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~GdlR~alslLdklis~~~~~It~e~V~~l  240 (563)
T PRK06647        161 KLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLFDQVVSFSDSDITLEQIRSK  240 (563)
T ss_pred             HhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998764 34567999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----c--------------------cC
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-----E--------------------MA  286 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-----~--------------------~~  286 (331)
                      ++......++++++++.++|..+++.++.+++..|+++..++..+.++.+.+     +                    ++
T Consensus       241 lg~~~~~~if~LidaI~~~D~~~al~~l~~Ll~~G~d~~~iL~~Ll~~fRdLL~vK~G~~~~~~l~~~~e~l~k~~~~~s  320 (563)
T PRK06647        241 MGLTGDEFLEKLASSILNEDAKELLCVLDSVFLSGVSVEQFLLDCIEFFRELLFLKHGIKNEAFIGIKAERLPEKLREFD  320 (563)
T ss_pred             hCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhcCCchhhhccccHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999998887766542     1                    23


Q ss_pred             hHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          287 EHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       287 ~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      ...+.+++..+.+++++++.+.++++.||.++++++...
T Consensus       321 ~~~L~~~l~~Llea~~~lK~n~~~~l~lE~llikl~~~~  359 (563)
T PRK06647        321 LSQIERAISVLLETYRDLQFSVNPRYELEINFSKILRLK  359 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            344468899999999999999999999999999999653

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=1.9e-45  Score=341.47  Aligned_cols=310  Identities=22%  Similarity=0.281  Sum_probs=275.2

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC----------------
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN----------------   74 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~----------------   74 (331)
                      ..||++||||++|++++||++++..|.+++.+++.+| +||+||+|+|||++|+.+++.++|+.                
T Consensus         3 ~~~la~KyRP~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i   82 (624)
T PRK14959          3 HASLTARYRPQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKV   82 (624)
T ss_pred             cchHHHHhCCCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHH
Confidence            4599999999999999999999999999999999877 79999999999999999999999852                


Q ss_pred             ---CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           75 ---YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        75 ---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                         ...+++++++....++++++++.+.+...++   .++++||||||+|.|+.+.+++|+++||+|+.+++||++|+..
T Consensus        83 ~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~---~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~  159 (624)
T PRK14959         83 TQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPM---EGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEP  159 (624)
T ss_pred             hcCCCCceEEEecccccCHHHHHHHHHHHHhhhh---cCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCCh
Confidence               1235777877666788899887777776665   6789999999999999999999999999999999999999999


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFK  230 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~  230 (331)
                      .++.++++|||+.++|.+++.+++..+|.+++.++++.+++++++.|++.++||+|.++++++++. .+.+.|+.++|.+
T Consensus       160 ~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~lLeqll~~g~~~It~d~V~~  239 (624)
T PRK14959        160 HKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLALGESRLTIDGARG  239 (624)
T ss_pred             hhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999998654 4556899999999


Q ss_pred             hcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc--------------------------
Q 020071          231 VCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE--------------------------  284 (331)
Q Consensus       231 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~--------------------------  284 (331)
                      +++....+.++++++++..+|...++.++.+|+..|+++..++..+..+.+.+-                          
T Consensus       240 ~lg~~~~e~vfeLl~AL~~~D~~aal~~l~~Ll~~g~d~~~iL~~Ll~~~RdLLl~k~~~~~~~~~l~i~~~~~~~~~~~  319 (624)
T PRK14959        240 VLGLAGQELFLRLMEALAAQDCLGVANVVRELLDRGVDMGFFLRELVATWRNLFMLRQAGEAALASLDLPEDEARQWLGW  319 (624)
T ss_pred             HhCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhhccccchhhcccCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999888877766444320                          


Q ss_pred             ---cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          285 ---MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       285 ---~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                         ++...+..+++.+.++..+++.|+|+++++|.++++++.+
T Consensus       320 A~~~s~~~L~~~l~~il~~~~~l~~n~n~rl~lE~lLL~l~~~  362 (624)
T PRK14959        320 AKRFEPAHIHACWQMTLEGQRRVLTSLEPAMALELLLLNLAML  362 (624)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence               1222234678889999999999999999999999999843

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=100.00  E-value=2.6e-45  Score=331.68  Aligned_cols=307  Identities=26%  Similarity=0.354  Sum_probs=274.9

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .||++||||++|++++||++.++.|.+.+.+|+.+| +|||||+|+|||++|+.+++.+.|+..                
T Consensus         2 ~~~~~~~rp~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~   81 (355)
T TIGR02397         2 QVLARKYRPQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEIN   81 (355)
T ss_pred             ccHHHHhCCCcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHh
Confidence            489999999999999999999999999999999999 799999999999999999999987532                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..+++.+++.+..+.+.+++.++.....++   ++++++|||||+|.++.+.+++|++++++|+.++.+|++++++.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~p~---~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~  158 (355)
T TIGR02397        82 SGSSLDVIEIDAASNNGVDDIREILDNVKYAPS---SGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPH  158 (355)
T ss_pred             cCCCCCEEEeeccccCCHHHHHHHHHHHhcCcc---cCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHH
Confidence               345677777655677788888888777665   68899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~  231 (331)
                      ++.+++++||..+.|+|++.+++..|+..+++++|+.+++++++.++..++||+|.+.+.++++.. ..+.||.++|.++
T Consensus       159 ~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~~~it~~~v~~~  238 (355)
T TIGR02397       159 KIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGNGNITYEDVNEL  238 (355)
T ss_pred             HHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcCCCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999998753 3456999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----------ccC--------------
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-----------EMA--------------  286 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-----------~~~--------------  286 (331)
                      +.......++++++++..++..+++.++.+|...|+++..++..+.++++.+           +++              
T Consensus       239 ~~~~~~~~i~~l~~ai~~~~~~~a~~~~~~l~~~~~~~~~il~~l~~~~r~l~~~k~~~~~~~~i~~~~~~~l~~~a~~~  318 (355)
T TIGR02397       239 LGLVDDEKLIELLEAILNKDTAEALKILDEILESGVDPEKFLEDLIEILRDLLLIKKTPSNLLAVLESEQEFLKELALKL  318 (355)
T ss_pred             hCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCccccccCHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999999998887765542           122              


Q ss_pred             -hHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHH
Q 020071          287 -EHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLS  322 (331)
Q Consensus       287 -~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~  322 (331)
                       ...+..+++.+.++++++++|+|+.+.+|.+++++|
T Consensus       319 s~~~L~~~l~~l~~~~~~lk~~~~~~l~le~l~~~~~  355 (355)
T TIGR02397       319 SLEFLLRLLDILLEALKDLRFSNDPRIWLEMTLLRLL  355 (355)
T ss_pred             CHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHhC
Confidence             222347899999999999999999999999999986

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.6e-45  Score=336.34  Aligned_cols=309  Identities=28%  Similarity=0.311  Sum_probs=278.2

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC---------------
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY---------------   75 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~---------------   75 (331)
                      -.||+.+|||++|++++||++++..|.+++++++++| +|||||+|+|||++|+.+++.++|.+.               
T Consensus         3 y~~~~~kyRP~~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i   82 (486)
T PRK14953          3 YIPFARKYRPKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEI   82 (486)
T ss_pred             chHHHHhhCCCcHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHH
Confidence            4599999999999999999999999999999999999 689999999999999999999987321               


Q ss_pred             ----CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           76 ----REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        76 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                          ..+++++++....+.+.++++.......|+   .++++|+||||+|.++.+++++|++++++|+++++||+++++.
T Consensus        83 ~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~---~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~  159 (486)
T PRK14953         83 DKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPI---KGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEY  159 (486)
T ss_pred             hcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcc---cCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCH
Confidence                124566776666788889998888887776   7889999999999999999999999999999999999999999


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFK  230 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~  230 (331)
                      .+++++++|||+.+.|.|++.+++..|+..+++.+|+.+++++++.|+..++||+|.+.+.++.+. .+.+.||.++|.+
T Consensus       160 ~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~s~G~lr~al~~Ldkl~~~~~~~It~~~V~~  239 (486)
T PRK14953        160 DKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLDQASTYGEGKVTIKVVEE  239 (486)
T ss_pred             HHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999998873 4466799999999


Q ss_pred             hcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc------c----------------cChH
Q 020071          231 VCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY------E----------------MAEH  288 (331)
Q Consensus       231 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~------~----------------~~~~  288 (331)
                      +++......++++++++..++...++.++.+|...|.++..++..+.++++.+      +                ++..
T Consensus       240 ~lg~~~~~~vf~Li~ai~~~d~~~al~~l~~L~~~g~~~~~iL~~L~~~~rdll~~k~~~~~~~~~~~~~~~~~~~~~~~  319 (486)
T PRK14953        240 FLGIVSQESVRKFLNLLLESDVDEAIKFLRTLEEKGYNLNKFWKQLEEEIRNILLNKSLKNPEEVFQVEDFYRKLEKPLE  319 (486)
T ss_pred             HhCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCChhhhcchHHHHHHhcCCHH
Confidence            99999999999999999999999999999999999999999999998877653      1                1123


Q ss_pred             hHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          289 LKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       289 ~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                      .+..+++.+.++..+++. +|+++++|.++++++.+
T Consensus       320 ~l~~~~~~~~~~~~~l~~-~~~~~~~E~~ll~l~~~  354 (486)
T PRK14953        320 ALLYLEDVINKAFSEART-RDPLRAYELAILKLLYV  354 (486)
T ss_pred             HHHHHHHHHHHHHHHHhc-cChhHHHHHHHHHHHhh
Confidence            345678889999999999 99999999999999854

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=5.4e-45  Score=334.28  Aligned_cols=308  Identities=26%  Similarity=0.302  Sum_probs=278.2

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-----------------
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-----------------   75 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-----------------   75 (331)
                      .|.++|||++|++++||+++...|.+.+.+++++| ++||||||+|||++|+.+++.+.|...                 
T Consensus         3 ~l~~kyRP~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~   82 (472)
T PRK14962          3 ALYRKYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDE   82 (472)
T ss_pred             hhHHHHCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhc
Confidence            58999999999999999999999999999999998 799999999999999999999987532                 


Q ss_pred             --CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCC
Q 020071           76 --REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSK  153 (331)
Q Consensus        76 --~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~  153 (331)
                        ..+++++++....+++.+++........++   .++++++||||+|.++.++++.|++++++|+.++++|++++++.+
T Consensus        83 g~~~dv~el~aa~~~gid~iR~i~~~~~~~p~---~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~k  159 (472)
T PRK14962         83 GTFMDVIELDAASNRGIDEIRKIRDAVGYRPM---EGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEK  159 (472)
T ss_pred             CCCCccEEEeCcccCCHHHHHHHHHHHhhChh---cCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHh
Confidence              236788888777788888887776666654   678999999999999999999999999999999999999998889


Q ss_pred             CChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhhhhc
Q 020071          154 IIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVFKVC  232 (331)
Q Consensus       154 l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~~  232 (331)
                      +.++++|||..+.|.|++.+++..+++.+++.+++.+++++++.|++.++||+|.+++.|+.+.. ..+.||.++|.+++
T Consensus       160 l~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~~~It~e~V~~~l  239 (472)
T PRK14962        160 VPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLETVHEAL  239 (472)
T ss_pred             hhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998653 33469999999999


Q ss_pred             CCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCh-HhHHHHHHHHHHHHHHHhcCCCc
Q 020071          233 DQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAE-HLKLEFMKEAGFAHMRICDGVGS  310 (331)
Q Consensus       233 ~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~-~~~~~~~~~l~~~~~~l~~~~~~  310 (331)
                      +....+.++++++++.++|.++|+.++.+|+..|++|..|++.+...+.+ +++.+ .....++..+.++-..++.--..
T Consensus       240 ~~~~~~~i~~li~si~~~d~~~Al~~l~~ll~~Gedp~~i~r~l~~~~~edi~~a~~~~~~~~~~~~~~~~~~i~~~e~~  319 (472)
T PRK14962        240 GLIPIEVVRDYINAIFNGDVKRVFTVLDDVYYSGKDYEVLIQQAIEDLVEDLERERANDIIQVSRQLLNILREIKFAEEK  319 (472)
T ss_pred             cCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHHHhCCcchH
Confidence            99999999999999999999999999999999999999999999888776 45555 66778888888888899988888


Q ss_pred             hHHHHHHHHHHHHH
Q 020071          311 YLQLCGLLAKLSIV  324 (331)
Q Consensus       311 ~l~l~~l~~~l~~~  324 (331)
                      .+..+.++++++.-
T Consensus       320 ~~l~~~~~~~~~~~  333 (472)
T PRK14962        320 RLVCKLGSASIATR  333 (472)
T ss_pred             HHHHHHHHHHHHHh
Confidence            88999999888853

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=7.3e-45  Score=336.13  Aligned_cols=312  Identities=19%  Similarity=0.224  Sum_probs=276.8

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC---------------
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY---------------   75 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~---------------   75 (331)
                      -.||++||||++|++++||++++..|.+.+..++.+| +||+||+|+|||++|+.+++.++|...               
T Consensus         3 y~~La~KyRP~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i   82 (546)
T PRK14957          3 YQALARKYRPQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAI   82 (546)
T ss_pred             chhHHHHHCcCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHH
Confidence            3589999999999999999999999999999999999 799999999999999999999998421               


Q ss_pred             ----CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           76 ----REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        76 ----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                          ..++++++.....++++++++++.+...++   .++++|+||||+|.++..++++|+++||+||.+++||++|++.
T Consensus        83 ~~~~~~dlieidaas~~gvd~ir~ii~~~~~~p~---~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~  159 (546)
T PRK14957         83 NNNSFIDLIEIDAASRTGVEETKEILDNIQYMPS---QGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDY  159 (546)
T ss_pred             hcCCCCceEEeecccccCHHHHHHHHHHHHhhhh---cCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECCh
Confidence                235667777666788999999988887776   7889999999999999999999999999999999999999999


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFK  230 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~  230 (331)
                      .+++++++|||..++|.|++.+++..++.++++++|+.+++++++.+++.++||+|.+++.++.+. ...+.|+.+++.+
T Consensus       160 ~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s~GdlR~alnlLek~i~~~~~~It~~~V~~  239 (546)
T PRK14957        160 HKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLLDQAISFCGGELKQAQIKQ  239 (546)
T ss_pred             hhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCCHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999765 2347899999999


Q ss_pred             hcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-----------------------c--cc
Q 020071          231 VCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-----------------------Y--EM  285 (331)
Q Consensus       231 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-----------------------~--~~  285 (331)
                      +++....+.++++++++.+++..+++..+.++...|.+..+++..+..+...                       +  .+
T Consensus       240 ~l~~~~~~~v~~ll~Al~~~d~~~~l~~~~~l~~~~~~~~~~l~~l~~~~~r~~~~~~~~~~~~~~~~~~~~i~~~a~~~  319 (546)
T PRK14957        240 MLGIIDSEEVYSIINAIIDNDPKAILPAIKNLALTESSADAVLDRIAEIWFACCIYSFTQSLDAVNDIDVDIINNILAKI  319 (546)
T ss_pred             HHccCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcccccccchhhHHHHHHHHHhC
Confidence            9999888999999999999999999999999999898887777665421100                       0  13


Q ss_pred             ChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh
Q 020071          286 AEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       286 ~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~  326 (331)
                      ++..+..+++.+.++..+++.+.|.++++|..++++.....
T Consensus       320 s~~~l~~~~~~~~~~~~~l~~~~~~~~~~em~l~r~~~~~p  360 (546)
T PRK14957        320 SIEQAHFLYQLTITAKKDIALAPNFETGVTMAILRLIAFQK  360 (546)
T ss_pred             CHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCC
Confidence            45555688999999999999999999999999999987653

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=9.9e-45  Score=337.93  Aligned_cols=310  Identities=21%  Similarity=0.295  Sum_probs=279.6

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .+|.+||||++|++++||+++++.|.+++..++++| +||+||+|+|||++|+.+++.++|+..                
T Consensus         4 ~vLarKYRP~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~   83 (709)
T PRK08691          4 QVLARKWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQID   83 (709)
T ss_pred             hhHHHHhCCCCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHh
Confidence            479999999999999999999999999999999999 799999999999999999999998631                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..++++++.....+++.+++++......++   .++++|+||||+|.++..++++|+++||+|+.+++||++|++..
T Consensus        84 ~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~---~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~  160 (709)
T PRK08691         84 AGRYVDLLEIDAASNTGIDNIREVLENAQYAPT---AGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPH  160 (709)
T ss_pred             ccCccceEEEeccccCCHHHHHHHHHHHHhhhh---hCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCcc
Confidence               124567777777788999999887766665   67899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~  231 (331)
                      +++++++|||..+.|.+++.+++..+|.++++++|+.++++++..|++.++||+|.++++++++.. +.+.|+.++|..+
T Consensus       161 kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~GslRdAlnLLDqaia~g~g~It~e~V~~l  240 (709)
T PRK08691        161 KVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIALGSGKVAENDVRQM  240 (709)
T ss_pred             ccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCcCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999987643 4568999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-------------------------cC
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE-------------------------MA  286 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~-------------------------~~  286 (331)
                      ++....+.++++++++..++...++..+++|...|.+...++..+..+++++.                         ++
T Consensus       241 LG~~d~~~If~LldAL~~~d~~~al~~l~~L~~~G~d~~~~l~~L~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~a~~~~  320 (709)
T PRK08691        241 IGAVDKQYLYELLTGIINQDGAALLAKAQEMAACAVGFDNALGELAILLQQLALIQAVPSALAHDDPDSDILHRLAQTIS  320 (709)
T ss_pred             HcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhcCchhccccchHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999988877665521                         23


Q ss_pred             hHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          287 EHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       287 ~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      ...+..++..+......++...++++.+|..++++..+.
T Consensus       321 ~~~l~~~~q~~l~~~~~l~~a~~~~~~~Em~llrl~~~~  359 (709)
T PRK08691        321 GEQIQLYYQIAVHGKRDLSLAPDEYAGFMMTLLRMLAFA  359 (709)
T ss_pred             HHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcC
Confidence            333457888889999999999999999999999998654

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=6.8e-44  Score=322.87  Aligned_cols=308  Identities=24%  Similarity=0.336  Sum_probs=274.4

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC-------CCCceEEeec
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN-------YREAVMELNA   84 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~-------~~~~~~~~~~   84 (331)
                      .+|++||||++|++++||+.+++.+.+.++++..+| ++||||+|+|||++|+.+++.+.|.+       +...+++++.
T Consensus         5 ~~~~~k~rP~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~   84 (367)
T PRK14970          5 VVSARKYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDA   84 (367)
T ss_pred             HHHHHHHCCCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEecc
Confidence            489999999999999999999999999999999887 79999999999999999999998742       2345566666


Q ss_pred             CCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccce
Q 020071           85 SDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAI  164 (331)
Q Consensus        85 ~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~  164 (331)
                      ....+.+.+++.+..+...++   ++++++|||||+|.++...++.|++++++|+.++.+|++++...++.++++|||..
T Consensus        85 ~~~~~~~~i~~l~~~~~~~p~---~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~  161 (367)
T PRK14970         85 ASNNSVDDIRNLIDQVRIPPQ---TGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQI  161 (367)
T ss_pred             ccCCCHHHHHHHHHHHhhccc---cCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhccee
Confidence            555667888888887766665   67899999999999999999999999999999999999999999999999999999


Q ss_pred             eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhhhhcCCCCHHHHHHH
Q 020071          165 VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVFKVCDQPHPLHVKNM  243 (331)
Q Consensus       165 i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~~~~~~~~~i~~l  243 (331)
                      ++|.+++++++..|+..+++++|+.+++++++.++..++||+|.+.+.++++.. ..+.||.+++..++....++.++++
T Consensus       162 v~~~~~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~gdlr~~~~~lekl~~y~~~~it~~~v~~~~~~~~~~~if~l  241 (367)
T PRK14970        162 FDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFDRVVTFCGKNITRQAVTENLNILDYDTYINV  241 (367)
T ss_pred             EecCCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHhCCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999998753 1234999999999999999999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc------------c---------------cChHhHHHHHHH
Q 020071          244 VRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY------------E---------------MAEHLKLEFMKE  296 (331)
Q Consensus       244 ~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~------------~---------------~~~~~~~~~~~~  296 (331)
                      ++++..++..+++..++++...|+++..|+..+.++.+.+            +               ++...+.+++..
T Consensus       242 ~~ai~~~~~~~a~~~~~~l~~~~~~~~~il~~l~~~fr~ll~~k~~~~~~~l~~~~~~~~~~~~~a~~~s~~~L~~~l~~  321 (367)
T PRK14970        242 TDLILENKIPELLLAFNEILRKGFDGHHFIAGLASHFRDLMVSKTPATIALLEVGEQAKKRYEVQSQKVSQSFLLSGIDI  321 (367)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhccCccccccCCHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999999999999999999999999999887765542            1               233334588999


Q ss_pred             HHHHHHHHhcCCCchHHHHHHHHHHHH
Q 020071          297 AGFAHMRICDGVGSYLQLCGLLAKLSI  323 (331)
Q Consensus       297 l~~~~~~l~~~~~~~l~l~~l~~~l~~  323 (331)
                      +.+++++++++.++.+.+|.++++++.
T Consensus       322 l~~~d~~lK~~~~~~l~lE~~l~~l~~  348 (367)
T PRK14970        322 ANDCDLKYKLSKNQRLLVELALMQLAS  348 (367)
T ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHhh
Confidence            999999999999999999999999975

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=4.4e-44  Score=337.91  Aligned_cols=310  Identities=23%  Similarity=0.308  Sum_probs=277.8

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC---------------
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY---------------   75 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~---------------   75 (331)
                      -.||+++|||++|++++||++++..|.+++..++.+| +||+||+|+|||++|+.+++.+.|...               
T Consensus         3 ~~pl~~kyRP~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~   82 (620)
T PRK14948          3 YEPLHHKYRPQRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCR   82 (620)
T ss_pred             cchHHHHhCCCcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHH
Confidence            3589999999999999999999999999999998866 899999999999999999999998521               


Q ss_pred             ------CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071           76 ------REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus        76 ------~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                            +.++++++.....+++.+++.+......++   .++++|+||||+|.|+.+++++|++++|+|+.+++||++|+
T Consensus        83 ~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~---~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~  159 (620)
T PRK14948         83 AIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPV---QARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATT  159 (620)
T ss_pred             HHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChh---cCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeC
Confidence                  125666777666788999999988877765   67899999999999999999999999999999999999999


Q ss_pred             CCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhh
Q 020071          150 VSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVF  229 (331)
Q Consensus       150 ~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~  229 (331)
                      ++.+++++|+|||..+.|.+++.+++..++.+++.++++.++++++..+++.++|++|.+.++++++....+.||.++++
T Consensus       160 ~~~~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~is~~al~~La~~s~G~lr~A~~lLeklsL~~~~It~e~V~  239 (620)
T PRK14948        160 DPQRVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGGLRDAESLLDQLSLLPGPITPEAVW  239 (620)
T ss_pred             ChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCCCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999886556689999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----c--------------------
Q 020071          230 KVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-----E--------------------  284 (331)
Q Consensus       230 ~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-----~--------------------  284 (331)
                      ++++...+..++++++++..++...++.++.+|...|.++..++..+.++++.+     +                    
T Consensus       240 ~lvg~~~e~~i~~Ll~ai~~~d~~~al~~~~~Ll~~g~~p~~iL~~L~~~~RDLL~~K~~~~~~~l~~i~~d~~~~l~~~  319 (620)
T PRK14948        240 DLLGAVPEQDLLNLLKALASNDPESLLDSCRQLLDRGREPLAILQGLAAFYRDLLLAKTAPNRPDLVAVSQQTWDELCKL  319 (620)
T ss_pred             HHhcCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcccchhhhhcCHHHHHHHHHH
Confidence            999998899999999999999999999999999999999998888877755542     0                    


Q ss_pred             ---cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          285 ---MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       285 ---~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                         ++...+.++++.+.+++++++++.++++.||.+++++...
T Consensus       320 A~~~s~~~L~~~i~~L~eae~~LK~n~nprL~LE~lLl~l~~~  362 (620)
T PRK14948        320 AKQINLERILQWQQHLKGSEYQLKNSTQPRLWLEVTLLGLLPS  362 (620)
T ss_pred             HhhCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHhhcc
Confidence               1223335889999999999999999999999999999854

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=100.00  E-value=1.2e-43  Score=318.73  Aligned_cols=306  Identities=33%  Similarity=0.522  Sum_probs=267.9

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC----
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR----   88 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~----   88 (331)
                      .+|.+||||++|++++|+++++..|.+++..+..||++|+||+|+|||++|+++++.+.|..+..+++.+++.+..    
T Consensus         3 ~~w~~ky~P~~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~   82 (337)
T PRK12402          3 PLWTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGK   82 (337)
T ss_pred             CchHHhhCCCcHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcch
Confidence            4899999999999999999999999999999998999999999999999999999999877655566777764321    


Q ss_pred             ----------------------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEE
Q 020071           89 ----------------------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFAL  146 (331)
Q Consensus        89 ----------------------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~  146 (331)
                                            ..+.+++.++......  ...+++++|||||+|.++.+.++.|.+++++++.+++||+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il  160 (337)
T PRK12402         83 KYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYR--PLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFII  160 (337)
T ss_pred             hhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcC--CCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEE
Confidence                                  1123333333332221  1145678999999999999999999999999998899999


Q ss_pred             eeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchh
Q 020071          147 ACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQE  226 (331)
Q Consensus       147 ~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~  226 (331)
                      +++.+.++.+++++||..+.|.|++.+++..++.+++.++++.+++++++.|++.++||+|.+++.++.++...+.||.+
T Consensus       161 ~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~gdlr~l~~~l~~~~~~~~~It~~  240 (337)
T PRK12402        161 ATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEITME  240 (337)
T ss_pred             EeCChhhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            99888899999999999999999999999999999999999999999999999999999999999999887666789999


Q ss_pred             hhhhhcCC-CCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHH
Q 020071          227 NVFKVCDQ-PHPLHVKNMVRNVLEGKFDDACSGLKQLY-DLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRI  304 (331)
Q Consensus       227 ~v~~~~~~-~~~~~i~~l~~~~~~~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l  304 (331)
                      ++.+++.. ..+..++++++++.+++..+++.++.+|. ..|.++..|+..+.+.+..- ++...+.+++..+.++++++
T Consensus       241 ~v~~~~~~~~~~~~i~~l~~ai~~~~~~~a~~~l~~l~~~~g~~~~~i~~~l~~~~~~~-~~~~~l~~~~~~l~~~d~~l  319 (337)
T PRK12402        241 AAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLLIDEGLSGGEVLEELLRVARSR-YRGDNLARLHRLAADADARL  319 (337)
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH-CCHHHHHHHHHHHHHHHHHH
Confidence            99999887 66889999999999999999999999987 79999999999887655442 77788899999999999999


Q ss_pred             hcCCCchHHHHHHHHHH
Q 020071          305 CDGVGSYLQLCGLLAKL  321 (331)
Q Consensus       305 ~~~~~~~l~l~~l~~~l  321 (331)
                      ++|.++.++||.++.++
T Consensus       320 k~g~~~~~~le~~i~~~  336 (337)
T PRK12402        320 TDGANDRIQLEALLAEL  336 (337)
T ss_pred             HcCCCHHHHHHHHHHhh
Confidence            99999999999999886

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=100.00  E-value=7.6e-44  Score=329.19  Aligned_cols=269  Identities=23%  Similarity=0.315  Sum_probs=247.2

Q ss_pred             CCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC--------------
Q 020071           11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY--------------   75 (331)
Q Consensus        11 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~--------------   75 (331)
                      +..+|.+||||++|++++||+.++..|.+++.+++.+| +||+||+|+|||++|+.+++.+.|.++              
T Consensus         2 ~~~~~~~KyRP~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~   81 (605)
T PRK05896          2 SEITFYRKYRPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCES   81 (605)
T ss_pred             cchhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            34689999999999999999999999999999999999 899999999999999999999998542              


Q ss_pred             -----CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071           76 -----REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus        76 -----~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                           ..+++++++....+++++++.+..+...++   .++++|+||||+|.|+..++++|+++||+||.++++|++|+.
T Consensus        82 i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~---~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~  158 (605)
T PRK05896         82 INTNQSVDIVELDAASNNGVDEIRNIIDNINYLPT---TFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTE  158 (605)
T ss_pred             HHcCCCCceEEeccccccCHHHHHHHHHHHHhchh---hCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCC
Confidence                 235677777666788999999988888776   678999999999999999999999999999999999999999


Q ss_pred             CCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhh
Q 020071          151 SSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVF  229 (331)
Q Consensus       151 ~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~  229 (331)
                      +.+++++++|||+.+.|.|++.+++..|+..++.++|+.+++++++.+++.++|++|.+++.++.+.. .+..|+.++|.
T Consensus       159 ~~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS~GdlR~AlnlLekL~~y~~~~It~e~V~  238 (605)
T PRK05896        159 FQKIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQLSTFKNSEIDIEDIN  238 (605)
T ss_pred             hHhhhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhhcCCCCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999998753 22349999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Q 020071          230 KVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN  282 (331)
Q Consensus       230 ~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~  282 (331)
                      ++++......++++++++..++..+++.++.+|...|+++.+++..+..+.+.
T Consensus       239 ellg~~~~~~Vf~Ll~AI~~kd~~~al~~l~~Ll~~ge~~~~il~~L~~~~RD  291 (605)
T PRK05896        239 KTFGLVDNNKKINLIELIQKNDIEELRNLINELESKGINFEAFCRDLINLLID  291 (605)
T ss_pred             HHhccCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHH
Confidence            99999888899999999999999999999999999999999999998887765

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=9.4e-44  Score=331.49  Aligned_cols=311  Identities=20%  Similarity=0.250  Sum_probs=278.1

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .+|++||||++|++++||+++++.|.+++..++++| +||+||+|+|||++|+.+++.++|+..                
T Consensus         4 ~~l~~k~rP~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~   83 (527)
T PRK14969          4 QVLARKWRPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEID   83 (527)
T ss_pred             HHHHHHhCCCcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHh
Confidence            479999999999999999999999999999999999 699999999999999999999998521                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..+++++++....+++.+++.+......+.   .++++|+||||+|.|+.+++|+|++++|+||.+++||++|+++.
T Consensus        84 ~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~---~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~  160 (527)
T PRK14969         84 SGRFVDLIEVDAASNTQVDAMRELLDNAQYAPT---RGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQ  160 (527)
T ss_pred             cCCCCceeEeeccccCCHHHHHHHHHHHhhCcc---cCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChh
Confidence               125667777666788999999888777775   68899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~  231 (331)
                      +++++++|||+.++|.+++.+++..++.++++++|+.+++++++.|++.++|++|.+++.++.+. .+.+.|+.++|.++
T Consensus       161 kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~~~~~al~~la~~s~Gslr~al~lldqai~~~~~~I~~~~v~~~  240 (527)
T PRK14969        161 KIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLLDQAIAYGGGTVNESEVRAM  240 (527)
T ss_pred             hCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCcCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998764 45778999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-------------------------cC
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE-------------------------MA  286 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~-------------------------~~  286 (331)
                      ++....+.++++++++..++...++..+++|...|.+...++..+..+.+.+-                         ++
T Consensus       241 ~~~~~~~~i~~ll~al~~~~~~~~l~~~~~l~~~~~~~~~~l~~l~~~~rd~~~~~~~~~~~~~~~~~~~~~~~~a~~~s  320 (527)
T PRK14969        241 LGAIDQDYLFALLEALLAQDGAALLAIADAMEERSLSFDAALQDLAALLHRLAIAQTVPDSIADDLPERDRLLDLAKRLS  320 (527)
T ss_pred             HCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhcCcccccccchHHHHHHHHHHcCC
Confidence            99988899999999999999999999999999999998888877655444320                         23


Q ss_pred             hHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh
Q 020071          287 EHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       287 ~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~  326 (331)
                      +..+..+++.+.++...+....++++.+|..++++.....
T Consensus       321 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~~~r~~~~~~  360 (527)
T PRK14969        321 PEDIQLYYQIALHGRRDLGLAPDEYAGFTMTLLRMLAFRP  360 (527)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHhccCC
Confidence            3444578899999999999999999999999999986654

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

Probab=100.00  E-value=2.4e-44  Score=326.78  Aligned_cols=310  Identities=25%  Similarity=0.338  Sum_probs=281.7

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------   75 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------   75 (331)
                      .++.-||||+.|+|++||+++...|...+..+++.| ++|+||.|+|||++|+.+++.++|.+.                
T Consensus         4 q~L~rKyRP~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~   83 (515)
T COG2812           4 QVLARKYRPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEIN   83 (515)
T ss_pred             HHHHHHhCcccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhh
Confidence            468899999999999999999999999999999999 899999999999999999999999751                


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         ..++++++.....++++++++++.....|.   .+++||+||||+|.|+..+.|+|++++|+||.++.|||+|+++.
T Consensus        84 ~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~---~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~  160 (515)
T COG2812          84 EGSLIDVIEIDAASNTGVDDIREIIEKVNYAPS---EGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQ  160 (515)
T ss_pred             cCCcccchhhhhhhccChHHHHHHHHHhccCCc---cccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcC
Confidence               135667777777899999999999999887   88999999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~  231 (331)
                      ++++|+.|||+.+.|+.++.+++...|..++.++++.++++++..+++.++|++|.+..+++.+. .+.+.||.+.|..+
T Consensus       161 Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~Gs~RDalslLDq~i~~~~~~It~~~v~~~  240 (515)
T COG2812         161 KIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGEGEITLESVRDM  240 (515)
T ss_pred             cCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCCChhhHHHHHHHHHHccCCcccHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998775 34478999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-c------------c--------------
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-Y------------E--------------  284 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~------------~--------------  284 (331)
                      ++....+.+.+++.++..+|...++..+++++..|.++..++..+..+.+. +            +              
T Consensus       241 lG~~~~~~~~~~~~~i~~~d~~~~~~~~~~l~~~G~~~~~~l~dl~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~  320 (515)
T COG2812         241 LGLTDIEKLLSLLEAILKGDAKEALRLINELIEEGKDPEAFLEDLLNFLRDLLLFKQTVPNELQLNTTEIEERTKELASQ  320 (515)
T ss_pred             hCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHhcccchhhccchhhhHHHHHHHHh
Confidence            999999999999999999999999999999999999999888887665543 1            0              


Q ss_pred             cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          285 MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       285 ~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      ++......++..+......++...++.+.+|.++.++....
T Consensus       321 ~~~~~l~~~~~~~~~~~~e~~~s~~~~~~~E~~lirl~~~~  361 (515)
T COG2812         321 ISVLNLQRLYQLLLPGLKELKRSLSPRLGLEMTLIRLLEAA  361 (515)
T ss_pred             cCHHHHHHHHHHHHHHHHHhhcCcchhHHHHHHHHHHHhhc
Confidence            11122345788888899999999999999999999998764

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=100.00  E-value=2.6e-43  Score=333.88  Aligned_cols=307  Identities=22%  Similarity=0.258  Sum_probs=276.4

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-----------------
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-----------------   75 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-----------------   75 (331)
                      .|.+||||++|++++||++++..|..++.+++.+| +|||||+|+|||++|+.+++.++|...                 
T Consensus         5 ~l~~kyRP~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~   84 (585)
T PRK14950          5 VLYRKWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIA   84 (585)
T ss_pred             HHHHHhCCCCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHh
Confidence            48899999999999999999999999999999999 699999999999999999999987532                 


Q ss_pred             ---CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           76 ---REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        76 ---~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                         +.++++++.....++++++++++.....++   +++++||||||+|.|+.+.++.|++++|+|+.+++||+++++..
T Consensus        85 ~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~---~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~  161 (585)
T PRK14950         85 EGSAVDVIEMDAASHTSVDDAREIIERVQFRPA---LARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVH  161 (585)
T ss_pred             cCCCCeEEEEeccccCCHHHHHHHHHHHhhCcc---cCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChh
Confidence               134667777666788899998887777665   67899999999999999999999999999999999999999999


Q ss_pred             CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhhhh
Q 020071          153 KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVFKV  231 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~  231 (331)
                      ++.++++|||..+.|.+++..++..++.++++++|+.+++++++.|++.++||+|.+++.++++.. ..+.|+.+++.++
T Consensus       162 kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al~~LekL~~y~~~~It~e~V~~l  241 (585)
T PRK14950        162 KVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTYGGEISLSQVQSL  241 (585)
T ss_pred             hhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999998753 4567999999999


Q ss_pred             cCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----c----------------------
Q 020071          232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-----E----------------------  284 (331)
Q Consensus       232 ~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-----~----------------------  284 (331)
                      ++....+.++++++++..+|..+++.++.+|...|.++..++..+.++++.+     +                      
T Consensus       242 l~~s~~~~vf~Lidal~~~d~~~al~~l~~L~~~g~~~~~il~~L~~~lR~Ll~lk~g~~~~~l~i~p~~~~~~~~qa~~  321 (585)
T PRK14950        242 LGISGDEEVKALAEALLAKDLKAALRTLNAVAADGADLRQFTRDLVEYLRQVMLLNSGADRSLLDLTADEKAALQKVSQI  321 (585)
T ss_pred             hcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhhcCccccccCCHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999998877755442     1                      


Q ss_pred             cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHH
Q 020071          285 MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSI  323 (331)
Q Consensus       285 ~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~  323 (331)
                      ++...+.+++..+.+++++++++.++++.+|.++++++.
T Consensus       322 ~s~~~L~~~l~~l~~~D~~lK~~~~~~l~lE~~l~~~~~  360 (585)
T PRK14950        322 ANLEALTKWVKAFSQLDFQLRTTSYGQLPLELAVIEALL  360 (585)
T ss_pred             CCHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHhc
Confidence            233344688999999999999998889999999999884

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

Probab=100.00  E-value=5.9e-40  Score=282.75  Aligned_cols=268  Identities=25%  Similarity=0.328  Sum_probs=229.2

Q ss_pred             CchhhhcCCCCCCccccCHHHHH---HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVA---RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG   89 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~---~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (331)
                      .|++++.||+++++++||++.+.   .|.++++.+.+++++||||||+||||+|+.+++..     +..|..+++... +
T Consensus        12 ~PLA~rmRP~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~-----~~~f~~~sAv~~-g   85 (436)
T COG2256          12 MPLAERLRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT-----NAAFEALSAVTS-G   85 (436)
T ss_pred             cChHHHhCCCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh-----CCceEEeccccc-c
Confidence            59999999999999999999994   79999999999999999999999999999999998     778999998775 8


Q ss_pred             hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEee--CCCCCCChhhhcccceeee
Q 020071           90 IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALAC--NVSSKIIEPIQSRCAIVRF  167 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~--~~~~~l~~~l~sr~~~i~~  167 (331)
                      +.++++.++.+.....   .+++.|+||||+|++++..|+.|+..+|+  ..+.+|.+|  |....+.++|+|||+++.|
T Consensus        86 vkdlr~i~e~a~~~~~---~gr~tiLflDEIHRfnK~QQD~lLp~vE~--G~iilIGATTENPsF~ln~ALlSR~~vf~l  160 (436)
T COG2256          86 VKDLREIIEEARKNRL---LGRRTILFLDEIHRFNKAQQDALLPHVEN--GTIILIGATTENPSFELNPALLSRARVFEL  160 (436)
T ss_pred             HHHHHHHHHHHHHHHh---cCCceEEEEehhhhcChhhhhhhhhhhcC--CeEEEEeccCCCCCeeecHHHhhhhheeee
Confidence            8899999998876654   57789999999999999999999999996  345555554  3346899999999999999


Q ss_pred             cCCCHHHHHHHHHHHHH--hcCCC-----CCHHHHHHHHHhcCCCHHHHHHHHHHHhh---CCCccchhhhhhhcCC---
Q 020071          168 SRLSDEEILSRLMVVVQ--EEKVP-----YVPEGLEAIIFTADGDMRQALNNLQATYS---GFRFVNQENVFKVCDQ---  234 (331)
Q Consensus       168 ~~~~~~~~~~~l~~~~~--~~~~~-----i~~~~~~~l~~~~~g~~r~~~~~l~~~~~---~~~~i~~~~v~~~~~~---  234 (331)
                      +|++.+++...+.+.+.  ..++.     +++++.+.++..++||.|.++|.|+.++.   ....++.+.+.+++..   
T Consensus       161 k~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~l~~~~~  240 (436)
T COG2256         161 KPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEEILQRRSA  240 (436)
T ss_pred             ecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHHHHhhhhh
Confidence            99999999999998443  34444     78999999999999999999999997752   2223446777666543   


Q ss_pred             -------CCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccChHhHH
Q 020071          235 -------PHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAEHLKL  291 (331)
Q Consensus       235 -------~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~~~~~  291 (331)
                             .+++.+..+.+++.+.|.++|+.|+.+|++.|++|..|.+.+.+++.+ +|+.+.+..
T Consensus       241 ~~Dk~gD~hYdliSA~hKSvRGSD~dAALyylARmi~~GeDp~yiARRlv~~AsEDIGlAdP~Al  305 (436)
T COG2256         241 RFDKDGDAHYDLISALHKSVRGSDPDAALYYLARMIEAGEDPLYIARRLVRIASEDIGLADPNAL  305 (436)
T ss_pred             ccCCCcchHHHHHHHHHHhhccCCcCHHHHHHHHHHhcCCCHHHHHHHHHHHHHhhccCCChhHH
Confidence                   566788999999999999999999999999999999999999998876 666444443

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=100.00  E-value=6.8e-39  Score=262.46  Aligned_cols=313  Identities=31%  Similarity=0.454  Sum_probs=258.4

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC------------------
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY------------------   75 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~------------------   75 (331)
                      .|.++|||++++.++++++....|+.....+.+||++||||+|.||.|.+.++.+++.+.+.                  
T Consensus         2 LWvdkyrpksl~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kkl   81 (351)
T KOG2035|consen    2 LWVDKYRPKSLDELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKL   81 (351)
T ss_pred             cchhhcCcchhhhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceE
Confidence            59999999999999999999999999999999999999999999999999999999987321                  


Q ss_pred             ------CCceEEeecCCCCChH--hHHHHHHHHHhcccCC--CCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEE
Q 020071           76 ------REAVMELNASDDRGID--VVRNKIKMFAQKKVTL--PPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFA  145 (331)
Q Consensus        76 ------~~~~~~~~~~~~~~~~--~i~~~i~~~~~~~~~~--~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I  145 (331)
                            ...++++++++....+  .+.+++++.++...-.  .....++|+|.|+|.|+.++|.+|.++||.+..++++|
T Consensus        82 EistvsS~yHlEitPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlI  161 (351)
T KOG2035|consen   82 EISTVSSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLI  161 (351)
T ss_pred             EEEEecccceEEeChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCceEE
Confidence                  1245677777764333  5777887777654321  13367999999999999999999999999999999999


Q ss_pred             EeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccch
Q 020071          146 LACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQ  225 (331)
Q Consensus       146 ~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~  225 (331)
                      ++||..+++.++|+|||..++++.|+++|+...+...++++|+.++.+.+..+++.++||+|+++-.++.+.-+....+.
T Consensus       162 l~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp~~~l~rIa~kS~~nLRrAllmlE~~~~~n~~~~a  241 (351)
T KOG2035|consen  162 LVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLPKELLKRIAEKSNRNLRRALLMLEAVRVNNEPFTA  241 (351)
T ss_pred             EEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCcHHHHHHHHHHhcccHHHHHHHHHHHHhccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999987533332222


Q ss_pred             hhhhhhcCCCCHHHHHHHHHHHHcCC----HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHH
Q 020071          226 ENVFKVCDQPHPLHVKNMVRNVLEGK----FDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAH  301 (331)
Q Consensus       226 ~~v~~~~~~~~~~~i~~l~~~~~~~~----~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~  301 (331)
                      .. ..+.....+..+.++.+.+...+    .-+.+..+++|+..+.+|.-|+..+.+..-. +.+......+++....++
T Consensus       242 ~~-~~i~~~dWe~~i~e~a~~i~~eQs~~~L~~vR~~LYeLL~~CIPP~~Ilk~Ll~~Ll~-~~d~~~k~~~~~~Aa~yE  319 (351)
T KOG2035|consen  242 NS-QVIPKPDWEIYIQEIARVILKEQSPAKLLEVRGRLYELLSHCIPPNTILKELLEELLL-KCDTQLKLEVIQHAAKYE  319 (351)
T ss_pred             cC-CCCCCccHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHh-cCCchhHHHHHHHHHHHH
Confidence            21 11222223334455555554332    4567778889999999999999777553322 367788899999999999


Q ss_pred             HHHhcCCCchHHHHHHHHHHHHHHhhh
Q 020071          302 MRICDGVGSYLQLCGLLAKLSIVRETA  328 (331)
Q Consensus       302 ~~l~~~~~~~l~l~~l~~~l~~~~~~~  328 (331)
                      .|+..|.....|||.|+.+++.+++..
T Consensus       320 hRl~lG~KaIfHLEaFVA~fM~iy~~~  346 (351)
T KOG2035|consen  320 HRLRLGQKAIFHLEAFVAKFMCIYKKF  346 (351)
T ss_pred             HHHhhcchhhhhHHHHHHHHHHHHHHH
Confidence            999999999999999999999998754

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=100.00  E-value=1.8e-36  Score=269.50  Aligned_cols=300  Identities=26%  Similarity=0.378  Sum_probs=248.4

Q ss_pred             CCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeE-EEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071            9 SAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNL-ILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus         9 ~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~-ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      .+...+|.+||||++|++++||++....+..+++++..||+ +|+||+|+|||++++++++.+     +.++..+++.+.
T Consensus         5 ~~~~~~w~~kyrP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~-----~~~~~~i~~~~~   79 (316)
T PHA02544          5 NPNEFMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV-----GAEVLFVNGSDC   79 (316)
T ss_pred             CCCCCcceeccCCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh-----CccceEeccCcc
Confidence            45678999999999999999999999999999999999995 669999999999999999987     456778888773


Q ss_pred             CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC-CHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceee
Q 020071           88 RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM-TAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVR  166 (331)
Q Consensus        88 ~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l-~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~  166 (331)
                       ..+.+++.+..+.....  ..+++++|||||+|.+ ..+.++.|..++++++.+++||++++...++.+++++||..+.
T Consensus        80 -~~~~i~~~l~~~~~~~~--~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~  156 (316)
T PHA02544         80 -RIDFVRNRLTRFASTVS--LTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVID  156 (316)
T ss_pred             -cHHHHHHHHHHHHHhhc--ccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEE
Confidence             35666665555443321  1356899999999999 6777888999999999999999999999999999999999999


Q ss_pred             ecCCCHHHHHHHHH-------HHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHH
Q 020071          167 FSRLSDEEILSRLM-------VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLH  239 (331)
Q Consensus       167 ~~~~~~~~~~~~l~-------~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~  239 (331)
                      |++|+.++...++.       .++.++|+.++++++..+++.+.||.|.+++.++.... .+.++.+++..+.    ...
T Consensus       157 ~~~p~~~~~~~il~~~~~~~~~~~~~~~~~i~~~al~~l~~~~~~d~r~~l~~l~~~~~-~~~i~~~~l~~~~----~~~  231 (316)
T PHA02544        157 FGVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYAS-TGKIDAGILSEVT----NSD  231 (316)
T ss_pred             eCCCCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHc-cCCCCHHHHHHhh----HHH
Confidence            99999888765543       34556799999999999999999999999999997754 3568887777644    467


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHH
Q 020071          240 VKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLA  319 (331)
Q Consensus       240 i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~  319 (331)
                      ++++++++...+..+... ...  ..+.++.+++..+++.+... +.+..+.++++.+.+++..+..+.|+.++++.++.
T Consensus       232 ~~~l~~~l~~~d~~~~~~-~~~--~~~~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~l~le~~l~  307 (316)
T PHA02544        232 IDDVVEALKAKDFKAVRA-LAP--NYANDYASFVGKLYDELYPQ-VTPPSIIRLIEIIGENNQYHGFAADQEIHLLYLLT  307 (316)
T ss_pred             HHHHHHHHHcCCHHHHHH-HHH--HhccCHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            888999998888877666 323  23678888888876655442 46778889999999999999999999999999999


Q ss_pred             HHHHHH
Q 020071          320 KLSIVR  325 (331)
Q Consensus       320 ~l~~~~  325 (331)
                      +++.-.
T Consensus       308 ~~~~~~  313 (316)
T PHA02544        308 QLMLEC  313 (316)
T ss_pred             HHHHhc
Confidence            998543

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

Probab=100.00  E-value=6.1e-38  Score=262.27  Aligned_cols=320  Identities=31%  Similarity=0.430  Sum_probs=281.7

Q ss_pred             CCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCC-CCCCceEEeecC
Q 020071            7 SSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP-NYREAVMELNAS   85 (331)
Q Consensus         7 ~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~   85 (331)
                      .+..+.+||.++|||.+++++++|++.+..+.+....++.||+|||||||+|||+...+.+..+.|. +...-+.++|.+
T Consensus        23 ~~~~~~~pwvekyrP~~l~dv~~~~ei~st~~~~~~~~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaS  102 (360)
T KOG0990|consen   23 QSPQYPQPWVEKYRPPFLGIVIKQEPIWSTENRYSGMPGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNAS  102 (360)
T ss_pred             CCcccCCCCccCCCCchhhhHhcCCchhhHHHHhccCCCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhcc
Confidence            3466788999999999999999999999999999999999999999999999999999999999884 344446789999


Q ss_pred             CCCChHhHHHHHHHHHhccc--CCCC-CCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhccc
Q 020071           86 DDRGIDVVRNKIKMFAQKKV--TLPP-GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRC  162 (331)
Q Consensus        86 ~~~~~~~i~~~i~~~~~~~~--~~~~-~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~  162 (331)
                      +.++++.+++.+..+.....  .++. ...++||+||+|.++.++||+|.+.++.+..+++|++++|.+.++.+.++|||
T Consensus       103 d~rgid~vr~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~AQnALRRviek~t~n~rF~ii~n~~~ki~pa~qsRc  182 (360)
T KOG0990|consen  103 DDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDAQNALRRVIEKYTANTRFATISNPPQKIHPAQQSRC  182 (360)
T ss_pred             CccCCcchHHHHHHHHhhccceeccccCceeEEEecchhHhhHHHHHHHHHHHHHhccceEEEEeccChhhcCchhhccc
Confidence            99999988888877765442  1111 36899999999999999999999999999999999999999999999999999


Q ss_pred             ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCc-----cchhhhhhhcCCCCH
Q 020071          163 AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRF-----VNQENVFKVCDQPHP  237 (331)
Q Consensus       163 ~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~-----i~~~~v~~~~~~~~~  237 (331)
                      ..++|.|++..+....+..++..+....+++....+++.+.||.|.++|.|+........     ++.+.++...+....
T Consensus       183 trfrf~pl~~~~~~~r~shi~e~e~~~~~~~~~~a~~r~s~gDmr~a~n~Lqs~~~~~~~~~e~~~~~~~vy~c~g~p~~  262 (360)
T KOG0990|consen  183 TRFRFAPLTMAQQTERQSHIRESEQKETNPEGYSALGRLSVGDMRVALNYLQSILKKVMERKELNNPNDLVYQCKGAPQP  262 (360)
T ss_pred             ccCCCCCCChhhhhhHHHHHHhcchhhcCHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCCCCCCCCchhhHHHhcCCCCh
Confidence            999999999999999999999999999999999999999999999999999987533333     455559999999999


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHH
Q 020071          238 LHVKNMVRNVLEGKFDDACSGLKQLY-DLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCG  316 (331)
Q Consensus       238 ~~i~~l~~~~~~~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~  316 (331)
                      ..+..+++.+.++++.++..-+.++. ..|.+..+++..+......+.++......++..++..++++..|++..+++..
T Consensus       263 ~dI~~I~~~il~~~~~~~~~~is~lk~~~gla~~d~i~~l~~~~~~~~~~~~~~~~I~~~l~~Ie~~ls~g~~~~~ql~a  342 (360)
T KOG0990|consen  263 SDIRQIIEKRMNGEDIELMLDDSELKKPKGLARQDRRAELEQRFAIVISKTPVEGHILYQLADIEERLSKGCMQKEQLKA  342 (360)
T ss_pred             hHHHHHHHHHhcCchHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHHHhcchHHHHHHHHhHHHHHHHHhcchhHHHHHHH
Confidence            99999999999999888777777764 67788899998888877777777788899999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 020071          317 LLAKLSIVRE  326 (331)
Q Consensus       317 l~~~l~~~~~  326 (331)
                      ++..+..-++
T Consensus       343 ii~~~~~~~~  352 (360)
T KOG0990|consen  343 IIKNFAAELK  352 (360)
T ss_pred             HHHHHHHHHH
Confidence            9998875443

>PRK04132 replication factor C small subunit; Provisional

Probab=100.00  E-value=2.4e-36  Score=289.89  Aligned_cols=274  Identities=43%  Similarity=0.677  Sum_probs=251.3

Q ss_pred             EEeC--CCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHH
Q 020071           50 ILAG--PPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA  127 (331)
Q Consensus        50 ll~G--~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~  127 (331)
                      +..|  |.+.||||+|+++++.+.+++++.+++++|+++..+++.+++.++.+...... ...+++|+||||+|.|+.++
T Consensus       568 ~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~-~~~~~KVvIIDEaD~Lt~~A  646 (846)
T PRK04132        568 FIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPI-GGASFKIIFLDEADALTQDA  646 (846)
T ss_pred             hhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCc-CCCCCEEEEEECcccCCHHH
Confidence            5556  67779999999999999888788899999999988999999999887754321 12357999999999999999


Q ss_pred             HHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHH
Q 020071          128 QQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMR  207 (331)
Q Consensus       128 ~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r  207 (331)
                      |++|+++||+|+.+++||++||++++++++|+|||+.+.|+|++.+++...|..++.++|+.++++++..++..++||+|
T Consensus       647 QnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i~~e~L~~Ia~~s~GDlR  726 (846)
T PRK04132        647 QQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMR  726 (846)
T ss_pred             HHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcccC
Q 020071          208 QALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLY-DLGYSPTDIITTLFRIIKNYEMA  286 (331)
Q Consensus       208 ~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~  286 (331)
                      .+++.|+.++.....||.+.+..+.+....+.+++++..+..++..+++..+++++ ..|.++.+++..+++.+....++
T Consensus       727 ~AIn~Lq~~~~~~~~It~~~V~~~~~~~~~~~I~~il~~~l~~~~~~ar~~l~ell~~~G~~~~~iL~~l~~~l~~~~i~  806 (846)
T PRK04132        727 RAINILQAAAALDDKITDENVFLVASRARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHREVFNLPID  806 (846)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHhCCCCHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCC
Confidence            99999998876667899999999999999999999999999999999999999987 79999999999999988776678


Q ss_pred             hHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          287 EHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       287 ~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                      +..+.+++..++++++++..|+++.++|+.|+.+++.+
T Consensus       807 ~~~k~~ll~~lae~e~rl~~G~n~~iqL~a~la~~~~~  844 (846)
T PRK04132        807 EPKKVELADKIGEYNFRLVEGANEMIQLEALLAQFTLM  844 (846)
T ss_pred             HHHHHHHHHHHHHHhHHHHCCCCHHHHHHHHHHHHHhh
Confidence            88899999999999999999999999999999999743

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=5.7e-36  Score=264.96  Aligned_cols=280  Identities=20%  Similarity=0.269  Sum_probs=231.1

Q ss_pred             CCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC---CCceEEeec--CCCCChHhHHH
Q 020071           22 TKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY---REAVMELNA--SDDRGIDVVRN   95 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~---~~~~~~~~~--~~~~~~~~i~~   95 (331)
                      |+|++++||+++++.+.+.+++++.+| ++|+||+|+|||++|+.+++.+.|...   ..++..+.+  ....+++++++
T Consensus         1 m~~~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~   80 (313)
T PRK05564          1 MSFHTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRN   80 (313)
T ss_pred             CChhhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHH
Confidence            579999999999999999999999999 699999999999999999999998642   334555544  23457789999


Q ss_pred             HHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHH
Q 020071           96 KIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI  175 (331)
Q Consensus        96 ~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~  175 (331)
                      .+..+...|+   .++++|+|||++|.++.+++|+|++++|+||+++.||++|+++++++++|+|||+.+.|.+++++++
T Consensus        81 ~~~~~~~~p~---~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~  157 (313)
T PRK05564         81 IIEEVNKKPY---EGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEI  157 (313)
T ss_pred             HHHHHhcCcc---cCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHH
Confidence            9888877776   7889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHH
Q 020071          176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDA  255 (331)
Q Consensus       176 ~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~  255 (331)
                      ..|+.+...    .++++.++.++.+++|+++.+...+....       ....        .+.++++++.+..++...+
T Consensus       158 ~~~l~~~~~----~~~~~~~~~l~~~~~g~~~~a~~~~~~~~-------~~~~--------~~~~~~~~~~l~~~~~~~~  218 (313)
T PRK05564        158 EKFISYKYN----DIKEEEKKSAIAFSDGIPGKVEKFIEDDS-------LKNI--------RNMSLEILKDIKKSNINIL  218 (313)
T ss_pred             HHHHHHHhc----CCCHHHHHHHHHHcCCCHHHHHHHhcccH-------HHHH--------HHHHHHHHHHHHcCCHHHH
Confidence            999987542    47888899999999999998877653311       0111        2356777777777777777


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHhc------c--------------------cChHhHHHHHHHHHHHHHHHhcCCC
Q 020071          256 CSGLKQLYDLGYSPTDIITTLFRIIKNY------E--------------------MAEHLKLEFMKEAGFAHMRICDGVG  309 (331)
Q Consensus       256 ~~~l~~l~~~g~~~~~i~~~l~~~~~~~------~--------------------~~~~~~~~~~~~l~~~~~~l~~~~~  309 (331)
                      +.++..+...+.++..++..+.++++.+      +                    ++...+.++++.+.++++.+++|+|
T Consensus       219 l~~~~~l~~~~~~~~~~l~~l~~~~rdll~~k~~~~~~~~~~~~~~~~i~~~a~~~s~~~L~~~~~~l~~~~~~l~~n~n  298 (313)
T PRK05564        219 LKYENFLIKYKENWEEILTCILSYIRDSLLYKETGNEELIINIDKIEDIKHISEKFSYKKLNKMIEIINDTRDNLSSNVN  298 (313)
T ss_pred             HHHHHHHHHcCccHHHHHHHHHHHHHHHHHHhccCchhhhcChhHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence            8888777777777777776665544431      0                    2333456789999999999999999


Q ss_pred             chHHHHHHHHHHHH
Q 020071          310 SYLQLCGLLAKLSI  323 (331)
Q Consensus       310 ~~l~l~~l~~~l~~  323 (331)
                      +.+++|.+++++.+
T Consensus       299 ~~l~le~lll~~~~  312 (313)
T PRK05564        299 PTLVFDSMLIKMQE  312 (313)
T ss_pred             ccHHHHHHHHhhhc
Confidence            99999999999864

>PRK13342 recombination factor protein RarA; Reviewed

Probab=100.00  E-value=2e-35  Score=270.46  Aligned_cols=263  Identities=25%  Similarity=0.345  Sum_probs=220.6

Q ss_pred             chhhhcCCCCCCccccCHHHHHH---HHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCCh
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVAR---LGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGI   90 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~---l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   90 (331)
                      ||+++|||.+|++++||++.+..   +.+++.++..++++|+||+|+|||++|+.+++.+     +..++.+++... +.
T Consensus         1 pla~~~RP~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~-----~~~~~~l~a~~~-~~   74 (413)
T PRK13342          1 PLAERMRPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT-----DAPFEALSAVTS-GV   74 (413)
T ss_pred             ChhhhhCCCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEecccc-cH
Confidence            89999999999999999999776   9999999998889999999999999999999988     567888887654 66


Q ss_pred             HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC--CCCCChhhhcccceeeec
Q 020071           91 DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV--SSKIIEPIQSRCAIVRFS  168 (331)
Q Consensus        91 ~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~--~~~l~~~l~sr~~~i~~~  168 (331)
                      +.+++.++.+.....   .+++.++||||+|.++...++.|++.+++  ..+.+|.+++.  ...+.++++|||.++.|.
T Consensus        75 ~~ir~ii~~~~~~~~---~g~~~vL~IDEi~~l~~~~q~~LL~~le~--~~iilI~att~n~~~~l~~aL~SR~~~~~~~  149 (413)
T PRK13342         75 KDLREVIEEARQRRS---AGRRTILFIDEIHRFNKAQQDALLPHVED--GTITLIGATTENPSFEVNPALLSRAQVFELK  149 (413)
T ss_pred             HHHHHHHHHHHHhhh---cCCceEEEEechhhhCHHHHHHHHHHhhc--CcEEEEEeCCCChhhhccHHHhccceeeEeC
Confidence            677777766654332   45688999999999999999999999986  34555555432  357889999999999999


Q ss_pred             CCCHHHHHHHHHHHHHhc--CC-CCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCC----------
Q 020071          169 RLSDEEILSRLMVVVQEE--KV-PYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQP----------  235 (331)
Q Consensus       169 ~~~~~~~~~~l~~~~~~~--~~-~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~----------  235 (331)
                      |++.+++..++.+.+...  ++ .+++++++.+++.++||+|.+++.++.+......|+.+++.+++...          
T Consensus       150 ~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~~~~~~~It~~~v~~~~~~~~~~~d~~~~~  229 (413)
T PRK13342        150 PLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELAALGVDSITLELLEEALQKRAARYDKDGDE  229 (413)
T ss_pred             CCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCCHHHHHHHHhhhhhccCCCccH
Confidence            999999999999987653  44 78999999999999999999999999876556679999998877642          


Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCh
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAE  287 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~  287 (331)
                      ..+.+..+.+++.+.|.+.++.|+..|+..|+++..|.+.+...+.+ +|+.+
T Consensus       230 ~~~~isa~~ks~rgsd~~aal~~l~~~l~~G~d~~~i~rrl~~~a~edig~a~  282 (413)
T PRK13342        230 HYDLISALHKSIRGSDPDAALYYLARMLEAGEDPLFIARRLVIIASEDIGLAD  282 (413)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcccC
Confidence            34556677788888999999999999999999999999998886643 45433

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

Probab=100.00  E-value=1.4e-34  Score=276.81  Aligned_cols=271  Identities=23%  Similarity=0.298  Sum_probs=219.6

Q ss_pred             CCCCchhhhcCCCCCCccccCHHHHH---HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           10 AYDIPWVEKYRPTKVCDIVGNLDAVA---RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~ig~~~~~~---~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      ..+.||.++|||.+|++++||++.+.   .+.+.+..+..+|++||||||+|||++|+.+++..     ...++.+++..
T Consensus        13 ~~~~PLaek~RP~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~-----~~~f~~lna~~   87 (725)
T PRK13341         13 QSEAPLADRLRPRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT-----RAHFSSLNAVL   87 (725)
T ss_pred             cccCChHHhcCCCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh-----cCcceeehhhh
Confidence            34569999999999999999999994   78899999999999999999999999999999987     45567777654


Q ss_pred             CCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC--CCCCChhhhcccce
Q 020071           87 DRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV--SSKIIEPIQSRCAI  164 (331)
Q Consensus        87 ~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~--~~~l~~~l~sr~~~  164 (331)
                      . +...+++.+........  ..+.+.++||||+|.++...+++|+..+++  ..+.+|.+++.  ...+.+++.|||.+
T Consensus        88 ~-~i~dir~~i~~a~~~l~--~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE~--g~IiLI~aTTenp~~~l~~aL~SR~~v  162 (725)
T PRK13341         88 A-GVKDLRAEVDRAKERLE--RHGKRTILFIDEVHRFNKAQQDALLPWVEN--GTITLIGATTENPYFEVNKALVSRSRL  162 (725)
T ss_pred             h-hhHHHHHHHHHHHHHhh--hcCCceEEEEeChhhCCHHHHHHHHHHhcC--ceEEEEEecCCChHhhhhhHhhccccc
Confidence            3 44555665554432211  024578999999999999999999999986  33445554432  35788999999999


Q ss_pred             eeecCCCHHHHHHHHHHHHH-------hcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhC---C----Cccchhhhhh
Q 020071          165 VRFSRLSDEEILSRLMVVVQ-------EEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSG---F----RFVNQENVFK  230 (331)
Q Consensus       165 i~~~~~~~~~~~~~l~~~~~-------~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~---~----~~i~~~~v~~  230 (331)
                      +.|+|++.+++..++++.+.       .+++.+++++++.|++.++||+|.+++.|+.+...   .    ..||.+.+.+
T Consensus       163 ~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~Le~a~~~~~~~~~~~i~It~~~~~e  242 (725)
T PRK13341        163 FRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALELAVESTPPDEDGLIDITLAIAEE  242 (725)
T ss_pred             eecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccCCCCceeccHHHHHH
Confidence            99999999999999999887       45788999999999999999999999999976421   1    1266666655


Q ss_pred             hc----------CCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccChHhH
Q 020071          231 VC----------DQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAEHLK  290 (331)
Q Consensus       231 ~~----------~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~~~~  290 (331)
                      .+          +..+++.+..+++++.++|.++|+.++.+|+..|++|..|.+.|.+.+.+ +|+.+...
T Consensus       243 ~l~~~~~~ydk~gd~hyd~Isa~~ksirgsD~daAl~~la~ml~~Gedp~~I~Rrl~~~asEdigladp~a  313 (725)
T PRK13341        243 SIQQRAVLYDKEGDAHFDTISAFIKSLRGSDPDAALYWLARMVEAGEDPRFIFRRMLIAASEDVGLADPQA  313 (725)
T ss_pred             HHHHhhhhcccCCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCChHH
Confidence            43          34678999999999999999999999999999999999999999998874 56644333

>PRK04195 replication factor C large subunit; Provisional

Probab=100.00  E-value=4.4e-34  Score=266.35  Aligned_cols=295  Identities=27%  Similarity=0.375  Sum_probs=235.5

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcC---C-CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDG---N-MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~---~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      ++|.+||||++|++++|++..+..+..++...   . .+++||+||||+|||++|+++++.+     +..++++|+++..
T Consensus         2 ~~W~eKyrP~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el-----~~~~ielnasd~r   76 (482)
T PRK04195          2 MPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY-----GWEVIELNASDQR   76 (482)
T ss_pred             CCchhhcCCCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEcccccc
Confidence            58999999999999999999999999998753   3 3458999999999999999999998     6789999998877


Q ss_pred             ChHhHHHHHHHHHhcccCCCCC-CceEEEEeCCCCCCH----HHHHHHHHHHHHhcCCcEEEEeeCCCCCCCh-hhhccc
Q 020071           89 GIDVVRNKIKMFAQKKVTLPPG-KHKVVVLDEADSMTA----GAQQALRRTMEIYSNSTRFALACNVSSKIIE-PIQSRC  162 (331)
Q Consensus        89 ~~~~i~~~i~~~~~~~~~~~~~-~~~vviide~d~l~~----~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~-~l~sr~  162 (331)
                      ..+.+...+.........  .+ ++++|||||+|.++.    ...++|+++++.  ..+.+|++||+...+.+ ++++||
T Consensus        77 ~~~~i~~~i~~~~~~~sl--~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~Lrsr~  152 (482)
T PRK04195         77 TADVIERVAGEAATSGSL--FGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRELRNAC  152 (482)
T ss_pred             cHHHHHHHHHHhhccCcc--cCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhhHhccc
Confidence            777777777665544321  33 689999999999976    568899999985  45678899999887776 899999


Q ss_pred             ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHH
Q 020071          163 AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKN  242 (331)
Q Consensus       163 ~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~  242 (331)
                      ..+.|++++..++..++..++..+++.+++++++.|++.++||+|.+++.|+.++.+.+.++.+++..+........+|+
T Consensus       153 ~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~~d~~~~if~  232 (482)
T PRK04195        153 LMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGRRDREESIFD  232 (482)
T ss_pred             eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhcCCCCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999877778899999998887777889999


Q ss_pred             HHHHHHc-CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHH---HHhcCCCchHHHHHHH
Q 020071          243 MVRNVLE-GKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHM---RICDGVGSYLQLCGLL  318 (331)
Q Consensus       243 l~~~~~~-~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~---~l~~~~~~~l~l~~l~  318 (331)
                      +++.++. ++...++..+..   ...++..++..+..-.-..-.....+.+++..+..++.   ++..+.+  .+|..+.
T Consensus       233 ~l~~i~~~k~~~~a~~~~~~---~~~~~~~i~~~l~en~~~~~~~~~~~~~a~~~ls~ad~~~~~~~~~~~--~~l~~~~  307 (482)
T PRK04195        233 ALDAVFKARNADQALEASYD---VDEDPDDLIEWIDENIPKEYDDPEDIARAYDALSRADIFLGRVKRTQN--YDLWRYA  307 (482)
T ss_pred             HHHHHHCCCCHHHHHHHHHc---ccCCHHHHHHHHHhccccccCCHHHHHHHHHHHhHHHHHHHHHHhcCC--cchHHHH
Confidence            9999987 678777765543   45677777666654222210123455566666655554   4444444  4555554


Q ss_pred             HHH
Q 020071          319 AKL  321 (331)
Q Consensus       319 ~~l  321 (331)
                      ..+
T Consensus       308 ~~~  310 (482)
T PRK04195        308 SDL  310 (482)
T ss_pred             HHH
Confidence            444

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=7.5e-34  Score=250.62  Aligned_cols=282  Identities=19%  Similarity=0.212  Sum_probs=212.3

Q ss_pred             HHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-------------------CCceEEeecC---CCCC
Q 020071           33 AVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-------------------REAVMELNAS---DDRG   89 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~---~~~~   89 (331)
                      .++.+.+.+.+++++| +||+||+|+||+++|.++++.+.|...                   +.++..+.+.   ..++
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~   89 (334)
T PRK07993         10 DYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLG   89 (334)
T ss_pred             HHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCC
Confidence            8999999999999999 799999999999999999999998521                   2345555443   3478


Q ss_pred             hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecC
Q 020071           90 IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSR  169 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~  169 (331)
                      ++++++..+.+...+.   .+++||+|||++|.|+.+++|+|+|+|||||+++.||++|++++++++||+|||+.+.|+|
T Consensus        90 idqiR~l~~~~~~~~~---~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~  166 (334)
T PRK07993         90 VDAVREVTEKLYEHAR---LGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAP  166 (334)
T ss_pred             HHHHHHHHHHHhhccc---cCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCC
Confidence            9999999999888886   7899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhhhhcCCCCHHHHHHHHHHHH
Q 020071          170 LSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVFKVCDQPHPLHVKNMVRNVL  248 (331)
Q Consensus       170 ~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~  248 (331)
                      ++.+++..||.+.     ..++++.+..++..++|+++.+++.++.... ....+ .+.+.......   ....++..+.
T Consensus       167 ~~~~~~~~~L~~~-----~~~~~~~a~~~~~la~G~~~~Al~l~~~~~~~~r~~~-~~~l~~~~~~~---~~~~~~~~~~  237 (334)
T PRK07993        167 PPEQYALTWLSRE-----VTMSQDALLAALRLSAGAPGAALALLQPERWQQREAL-CQALAYALPSG---DWLSLLPALN  237 (334)
T ss_pred             CCHHHHHHHHHHc-----cCCCHHHHHHHHHHcCCCHHHHHHHhcCchHHHHHHH-HHHHHHHhcCC---CHHHHHHHHc
Confidence            9999999999752     2467777888999999999999988753110 00000 01111111111   2223333333


Q ss_pred             cCCHHHHH----HHHHHHH--HcCCCH---HHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhc--CCCchHHHHHH
Q 020071          249 EGKFDDAC----SGLKQLY--DLGYSP---TDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICD--GVGSYLQLCGL  317 (331)
Q Consensus       249 ~~~~~~~~----~~l~~l~--~~g~~~---~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~--~~~~~l~l~~l  317 (331)
                      +.+....+    .++++++  ..|...   .+....+..++..  ++...+..+++.+.++.+++.+  |+|++++++.+
T Consensus       238 ~~~~~~~L~~l~~~~rD~l~~~~~~~~~~n~d~~~~i~~~a~~--~~~~~l~~~~~~l~~~~~~l~~~~N~N~~L~le~l  315 (334)
T PRK07993        238 HEQAPARLHWLATLLMDALKRQHGAAYVTNQDQPPLVAQLANH--LSPARLQAILGDVCHCREQLLSVTGVNRELLLTDL  315 (334)
T ss_pred             ccCHHHHHHHHHHHHHHHHHHhcCCcceeCHHHHHHHHHHHHh--CCHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            33444434    3444543  333211   1112222233333  6778888999999999999995  99999999999


Q ss_pred             HHHHHHHHhhh
Q 020071          318 LAKLSIVRETA  328 (331)
Q Consensus       318 ~~~l~~~~~~~  328 (331)
                      ++++.+++...
T Consensus       316 ll~~~~~~~~~  326 (334)
T PRK07993        316 LLRIEHYLQPG  326 (334)
T ss_pred             HHHHHHHHccc
Confidence            99999887654

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=1.8e-33  Score=246.36  Aligned_cols=271  Identities=20%  Similarity=0.259  Sum_probs=203.7

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-------------CCceEEeecC---
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-------------REAVMELNAS---   85 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-------------~~~~~~~~~~---   85 (331)
                      .|++++||+++++.|.+.+++++++| +||+||+|+||+++|.++++.+.|+..             ..++..+.+.   
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~   81 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQH   81 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccc
Confidence            58899999999999999999999988 799999999999999999999998641             1233333221   


Q ss_pred             --------------------CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEE
Q 020071           86 --------------------DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFA  145 (331)
Q Consensus        86 --------------------~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I  145 (331)
                                          ..+++++++++.+.+...++   .++++|+|||++|.|+..++|+|+++||+|| +++||
T Consensus        82 ~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~---~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fI  157 (314)
T PRK07399         82 QGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPL---EAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLI  157 (314)
T ss_pred             cccccchhhhhhccccccccccCcHHHHHHHHHHHccCcc---cCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEE
Confidence                                12456788888888888776   7889999999999999999999999999999 88999


Q ss_pred             EeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccch
Q 020071          146 LACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQ  225 (331)
Q Consensus       146 ~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~  225 (331)
                      ++|++++++++||+|||+.+.|+|++.+++.++|.+....++..   .....++..++|+++.+++.++...    .+..
T Consensus       158 Li~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~~~---~~~~~l~~~a~Gs~~~al~~l~~~~----~~~~  230 (314)
T PRK07399        158 LIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEILN---INFPELLALAQGSPGAAIANIEQLQ----SIPP  230 (314)
T ss_pred             EEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccccch---hHHHHHHHHcCCCHHHHHHHHHHHH----HHHH
Confidence            99999999999999999999999999999999999865433221   2246789999999999999886532    1111


Q ss_pred             hhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHH---HHHHHHHHHHHhcccChHhHHHHHHHHHHHHH
Q 020071          226 ENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPT---DIITTLFRIIKNYEMAEHLKLEFMKEAGFAHM  302 (331)
Q Consensus       226 ~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~---~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~  302 (331)
                      +             +...+... .++...++.+-..+ ..+.+..   .++..+..++.+   . .....+++.+.++.+
T Consensus       231 ~-------------~~~~~~~~-~~~~~~~~~~a~~~-~~~~~~e~Q~~~l~~~~~~~~~---~-~~~~~~~~~l~~a~~  291 (314)
T PRK07399        231 E-------------LLQKLEQP-PKSPLEALELAKDI-SEELDIEQQLWLIDYLQQHYWQ---K-TKNRQLLKQLEKLRK  291 (314)
T ss_pred             H-------------HHHHHHhc-ccCHHHHHHHHHHH-HHhcCHHHHHHHHHHHHHHHHH---h-hcchHHHHHHHHHHH
Confidence            1             11111211 13444444332222 2122211   122222222222   1 125788999999999


Q ss_pred             HHhcCCCchHHHHHHHHHHHH
Q 020071          303 RICDGVGSYLQLCGLLAKLSI  323 (331)
Q Consensus       303 ~l~~~~~~~l~l~~l~~~l~~  323 (331)
                      .+.+|+|++++++.++++++.
T Consensus       292 ~l~~nvn~~lv~e~~~l~l~~  312 (314)
T PRK07399        292 QLLSYVQPRLAWEVTLLELSQ  312 (314)
T ss_pred             HHHHcCCcchhHHHHHHHHhc
Confidence            999999999999999999975

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=3.1e-33  Score=251.17  Aligned_cols=293  Identities=20%  Similarity=0.261  Sum_probs=215.6

Q ss_pred             CCCccccCHHHHHHHHHHHHcCC---------CCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-----------------
Q 020071           23 KVCDIVGNLDAVARLGIIARDGN---------MPN-LILAGPPGTGKTTSILALAHELLGPNY-----------------   75 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~---------~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-----------------   75 (331)
                      .|++++||+++++.|++++..+.         .+| +||+||+|+|||++|+.+++.++|+..                 
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~   82 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAG   82 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcC
Confidence            58899999999999999999987         888 899999999999999999999998631                 


Q ss_pred             -CCceEEeecC-CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCC
Q 020071           76 -REAVMELNAS-DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSK  153 (331)
Q Consensus        76 -~~~~~~~~~~-~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~  153 (331)
                       +.++..+.+. ...+++++++.++.+...+.   .++++|+||||+|.|+..++|+|+++||+|++++.||++|+++..
T Consensus        83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~---~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~  159 (394)
T PRK07940         83 THPDVRVVAPEGLSIGVDEVRELVTIAARRPS---TGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPED  159 (394)
T ss_pred             CCCCEEEeccccccCCHHHHHHHHHHHHhCcc---cCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHH
Confidence             1233333332 33678899999888877775   678999999999999999999999999999999999999999999


Q ss_pred             CChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh--hCCCcc--------
Q 020071          154 IIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY--SGFRFV--------  223 (331)
Q Consensus       154 l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~--~~~~~i--------  223 (331)
                      ++++|+|||+.+.|+||+.+++..|+.+.   .  .++++.+..++..++|+++.++..++.-.  .....+        
T Consensus       160 llpTIrSRc~~i~f~~~~~~~i~~~L~~~---~--~~~~~~a~~la~~s~G~~~~A~~l~~~~~~~~~r~~~~~~l~~l~  234 (394)
T PRK07940        160 VLPTIRSRCRHVALRTPSVEAVAEVLVRR---D--GVDPETARRAARASQGHIGRARRLATDEEARARRAEVLNLALRLA  234 (394)
T ss_pred             ChHHHHhhCeEEECCCCCHHHHHHHHHHh---c--CCCHHHHHHHHHHcCCCHHHHHHHhcChHHHHHHHHHHHHHHhcc
Confidence            99999999999999999999999999742   2  36788899999999999999877753210  000000        


Q ss_pred             ch---------------hhhhhhcCCCCHHHHHHHHHHH-----------------------H---c--------CCHHH
Q 020071          224 NQ---------------ENVFKVCDQPHPLHVKNMVRNV-----------------------L---E--------GKFDD  254 (331)
Q Consensus       224 ~~---------------~~v~~~~~~~~~~~i~~l~~~~-----------------------~---~--------~~~~~  254 (331)
                      ..               +.+....+........++...+                       .   +        .....
T Consensus       235 ~~~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~  314 (394)
T PRK07940        235 RVSDAVAAAEELVKAAEAEAKALTAERDEAETEELRTALGAGGTGKGPAKALRGAAGALKDLEKRQKRRATRASRDALDR  314 (394)
T ss_pred             chhHHHHHHHHHHHHHHHHHHhhhccccHHHHHHHHHHhccccccccccccchhHHHHHHHHHHHHhhhchhhhhhhHHH
Confidence            00               0111112222222222222221                       0   0        01222


Q ss_pred             ----HHHHHHHHH--HcCCCH----HHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          255 ----ACSGLKQLY--DLGYSP----TDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       255 ----~~~~l~~l~--~~g~~~----~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                          ...|+++++  ..|.+.    .+....+.+.+..  ++...+..+++.+.++..++..|+|+++++|.+++++.+.
T Consensus       315 ~l~~l~~~~rDll~~~~g~~~~~~n~d~~~~l~~~a~~--~~~~~l~~~~~~~~~a~~~l~~n~n~~L~lE~lll~l~~~  392 (394)
T PRK07940        315 ALVDLAGLYRDVLVVQLGAEVGLINPDMADRLAELAAR--STPEGLLRRIDAVLACRERLAGNVKPLLAVEAMVAALRQA  392 (394)
T ss_pred             HHHHHHHHHHHHHHHhhcCCccccCHHHHHHHHHHHHh--CCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Confidence                455666653  333222    2222334444444  5778889999999999999999999999999999999876


Q ss_pred             H
Q 020071          325 R  325 (331)
Q Consensus       325 ~  325 (331)
                      +
T Consensus       393 ~  393 (394)
T PRK07940        393 L  393 (394)
T ss_pred             c
Confidence            4

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

Probab=100.00  E-value=2e-33  Score=238.68  Aligned_cols=269  Identities=21%  Similarity=0.313  Sum_probs=222.7

Q ss_pred             CCchhhhcCCCCCCccccCHHHHH---HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVA---RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~---~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      ..|++++-||++++|++||++++.   .|+..++++++|+++||||||+|||++|+.++......  ...|+++..... 
T Consensus       125 h~PLaermRPktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~--SyrfvelSAt~a-  201 (554)
T KOG2028|consen  125 HKPLAERMRPKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKH--SYRFVELSATNA-  201 (554)
T ss_pred             cCChhhhcCcchHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCC--ceEEEEEecccc-
Confidence            349999999999999999999986   78999999999999999999999999999999876322  345788877664 


Q ss_pred             ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC--CCCCCChhhhcccceee
Q 020071           89 GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACN--VSSKIIEPIQSRCAIVR  166 (331)
Q Consensus        89 ~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~--~~~~l~~~l~sr~~~i~  166 (331)
                      +..+++++++.......  ...++.|+||||+|++++..|+.|+...|+  ..+.+|.+|+  ....+..++.|||.++.
T Consensus       202 ~t~dvR~ife~aq~~~~--l~krkTilFiDEiHRFNksQQD~fLP~VE~--G~I~lIGATTENPSFqln~aLlSRC~Vfv  277 (554)
T KOG2028|consen  202 KTNDVRDIFEQAQNEKS--LTKRKTILFIDEIHRFNKSQQDTFLPHVEN--GDITLIGATTENPSFQLNAALLSRCRVFV  277 (554)
T ss_pred             chHHHHHHHHHHHHHHh--hhcceeEEEeHHhhhhhhhhhhcccceecc--CceEEEecccCCCccchhHHHHhccceeE
Confidence            66778888876655432  156788999999999999999999999986  4456666543  34689999999999999


Q ss_pred             ecCCCHHHHHHHHHHHHH------hc--C-----CCCCHHHHHHHHHhcCCCHHHHHHHHHHHh---------hCCCccc
Q 020071          167 FSRLSDEEILSRLMVVVQ------EE--K-----VPYVPEGLEAIIFTADGDMRQALNNLQATY---------SGFRFVN  224 (331)
Q Consensus       167 ~~~~~~~~~~~~l~~~~~------~~--~-----~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~---------~~~~~i~  224 (331)
                      +.+++.+.+..+|.+...      +.  +     ..+++.++++++..+.||.|.++|.|+...         .....++
T Consensus       278 LekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~Lems~~m~~tr~g~~~~~~lS  357 (554)
T KOG2028|consen  278 LEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALEMSLSMFCTRSGQSSRVLLS  357 (554)
T ss_pred             eccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhhcCCcccceec
Confidence            999999999999988544      11  1     236788999999999999999999998652         1234788


Q ss_pred             hhhhhhhcC----------CCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccCh
Q 020071          225 QENVFKVCD----------QPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAE  287 (331)
Q Consensus       225 ~~~v~~~~~----------~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~  287 (331)
                      .+++.+.+.          ..+++.|..+-+++.++|..+++.||.+|+..|++|..+.+.+.|++.+ +|+.+
T Consensus       358 idDvke~lq~s~~~YDr~Ge~HYntISA~HKSmRG~D~nAslY~LaRMLegGEdPLYVARRlvR~ASEDIGlaD  431 (554)
T KOG2028|consen  358 IDDVKEGLQRSHILYDRAGEEHYNTISALHKSMRGSDQNASLYWLARMLEGGEDPLYVARRLVRFASEDIGLAD  431 (554)
T ss_pred             HHHHHHHHhhccceecccchhHHHHHHHHHHhhcCCccchHHHHHHHHHccCCCcHHHHHHHHHHhhcccCcCC
Confidence            899987653          3567889999999999999999999999999999999999999998876 55433

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=3.7e-33  Score=247.40  Aligned_cols=288  Identities=19%  Similarity=0.194  Sum_probs=208.3

Q ss_pred             CCCCcccc-CHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-------------------CCceE
Q 020071           22 TKVCDIVG-NLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-------------------REAVM   80 (331)
Q Consensus        22 ~~~~~~ig-~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~   80 (331)
                      +.|+.++| |+++++.|.+.+.+|++|| +||+||+|+||+++|+.+++.+.|+..                   ..++.
T Consensus         2 ~~~~~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~   81 (329)
T PRK08058          2 MTWEQLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVH   81 (329)
T ss_pred             CcHHHHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEE
Confidence            35788999 9999999999999999999 699999999999999999999998641                   12333


Q ss_pred             Eeec-CCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhh
Q 020071           81 ELNA-SDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQ  159 (331)
Q Consensus        81 ~~~~-~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~  159 (331)
                      .+.. ....+++++++.++.+...++   .++++|+||||+|.++.+++|+|+++||+||+++.||++|+++.+++++|+
T Consensus        82 ~i~~~~~~i~id~ir~l~~~~~~~~~---~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIr  158 (329)
T PRK08058         82 LVAPDGQSIKKDQIRYLKEEFSKSGV---ESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTIL  158 (329)
T ss_pred             EeccccccCCHHHHHHHHHHHhhCCc---ccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHH
Confidence            3322 223567899999888877775   788999999999999999999999999999999999999999999999999


Q ss_pred             cccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-CCCccchhhhhhhcCCCCHH
Q 020071          160 SRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-GFRFVNQENVFKVCDQPHPL  238 (331)
Q Consensus       160 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~~~~~~~~  238 (331)
                      |||+.++|.|++.+++..++.+    +|  ++++.+..++..+ |+++.+...++.-.. ..... ...+.+.+......
T Consensus       159 SRc~~i~~~~~~~~~~~~~L~~----~g--i~~~~~~~l~~~~-g~~~~A~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~  230 (329)
T PRK08058        159 SRCQVVEFRPLPPESLIQRLQE----EG--ISESLATLLAGLT-NSVEEALALSEDDWFAQARAL-VIKLYEALHEKDLQ  230 (329)
T ss_pred             hhceeeeCCCCCHHHHHHHHHH----cC--CChHHHHHHHHHc-CCHHHHHHHhcCchHHHHHHH-HHHHHHHHHcCCHH
Confidence            9999999999999999888865    34  6677777777665 789999888753211 00000 01111111122222


Q ss_pred             HHHHHHHHHH---c-CC-HH----HHHHHHHHHH--HcCCCHH----HHHHHHHHHHHhcccChHhHHHHHHHHHHHHHH
Q 020071          239 HVKNMVRNVL---E-GK-FD----DACSGLKQLY--DLGYSPT----DIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMR  303 (331)
Q Consensus       239 ~i~~l~~~~~---~-~~-~~----~~~~~l~~l~--~~g~~~~----~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~  303 (331)
                      .+..+.+.+.   + ++ ..    ....++++++  ..|.+..    +....+..++..  ++...+..+++.+.++..+
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~rD~l~~~~~~~~~~~n~d~~~~l~~~a~~--~s~~~l~~~~~~~~~~~~~  308 (329)
T PRK08058        231 SFVFVQEKWMPLFKEKDQQQLGLDLLLLIYRDLLYLQLGEEDRLVFREQKEMLQQLALS--YSQQQIVAALELILEAKRR  308 (329)
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHHHHHh--CCHHHHHHHHHHHHHHHHH
Confidence            2222222221   1 11 11    2334445543  3332221    112223333333  6778889999999999999


Q ss_pred             HhcCCCchHHHHHHHHHHH
Q 020071          304 ICDGVGSYLQLCGLLAKLS  322 (331)
Q Consensus       304 l~~~~~~~l~l~~l~~~l~  322 (331)
                      +..|+|+++++|.+++++.
T Consensus       309 l~~n~n~~L~le~lll~~~  327 (329)
T PRK08058        309 LNSNVNFQLVMEQLVLRLQ  327 (329)
T ss_pred             HHHcCCHHHHHHHHHHhcc
Confidence            9999999999999999875

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=3.9e-32  Score=239.11  Aligned_cols=279  Identities=21%  Similarity=0.207  Sum_probs=206.7

Q ss_pred             HHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-------------------CCceEEeecC---CCCChHhH
Q 020071           37 LGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-------------------REAVMELNAS---DDRGIDVV   93 (331)
Q Consensus        37 l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~---~~~~~~~i   93 (331)
                      +.+.+..|+.+| +||+||+|+||+++|+.+++.++|+..                   +.++..+.+.   ..++++++
T Consensus        12 ~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~i   91 (328)
T PRK05707         12 WQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQV   91 (328)
T ss_pred             HHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHH
Confidence            334455699999 899999999999999999999998531                   2345555443   34788999


Q ss_pred             HHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCHH
Q 020071           94 RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDE  173 (331)
Q Consensus        94 ~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~  173 (331)
                      ++.++.+...+.   .++++|+|||++|.|+.+++|+|+++||+||+++.||++|+++..+++||+|||+.+.|.|++.+
T Consensus        92 R~l~~~~~~~~~---~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~  168 (328)
T PRK05707         92 RELVSFVVQTAQ---LGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNE  168 (328)
T ss_pred             HHHHHHHhhccc---cCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHH
Confidence            999988888876   78899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHH
Q 020071          174 EILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFD  253 (331)
Q Consensus       174 ~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~  253 (331)
                      ++.+||.+...    ..+++.+..++..++|+++.++..++........--.+.+..+....  ..++.+.+...+.+..
T Consensus       169 ~~~~~L~~~~~----~~~~~~~~~~l~la~Gsp~~A~~l~~~~~~~~r~~~~~~l~~~~~~~--~~~~~~~~~~~k~~~~  242 (328)
T PRK05707        169 ESLQWLQQALP----ESDERERIELLTLAGGSPLRALQLHEQGVREQRARVLDGVKKLLKQQ--QSASQLAESWLKVPLL  242 (328)
T ss_pred             HHHHHHHHhcc----cCChHHHHHHHHHcCCCHHHHHHHHCcchHHHHHHHHHHHHHHhcCc--ccHHHHHHHHccCCHH
Confidence            99999986431    24666777889999999999988764311000000011222222211  1334555555444555


Q ss_pred             HHHH----HHHHHH--HcCCCH-----HHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHh--cCCCchHHHHHHHHH
Q 020071          254 DACS----GLKQLY--DLGYSP-----TDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRIC--DGVGSYLQLCGLLAK  320 (331)
Q Consensus       254 ~~~~----~l~~l~--~~g~~~-----~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~--~~~~~~l~l~~l~~~  320 (331)
                      ..+.    ++++++  ..|.+.     .+....+..++..  ++...+..+++.+.++..++.  .|+|.++++|.++++
T Consensus       243 ~~l~~l~~~~~D~l~~~~~~~~~~~~n~d~~~~l~~~a~~--~~~~~L~~~~~~l~~~~~~l~~~~NvN~~L~le~lll~  320 (328)
T PRK05707        243 LLFDWFCDWAHDILRYQLTQDEEGLGLADMRKVLQYLAQK--SPQAKVLALQDWLLEQRQKVLGKANLNRQLLLEALLVQ  320 (328)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcccccCHHHHHHHHHHHHh--CCHHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHHHHH
Confidence            4444    444443  333222     2333444445555  577788899999999999986  899999999999999


Q ss_pred             HHHHHh
Q 020071          321 LSIVRE  326 (331)
Q Consensus       321 l~~~~~  326 (331)
                      +.++..
T Consensus       321 ~~~~~~  326 (328)
T PRK05707        321 WAGLPG  326 (328)
T ss_pred             HHHHhc
Confidence            987653

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=1.7e-31  Score=233.19  Aligned_cols=277  Identities=18%  Similarity=0.166  Sum_probs=207.6

Q ss_pred             HHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-------------------CCceEEeec--CCCCCh
Q 020071           33 AVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-------------------REAVMELNA--SDDRGI   90 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~--~~~~~~   90 (331)
                      .++.+.+.+.+|+++| +||+||+|+||+++|+.+++.+.|+..                   +.++..+.+  ...+++
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~i   89 (325)
T PRK06871         10 TYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGV   89 (325)
T ss_pred             HHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCH
Confidence            8999999999999999 799999999999999999999999531                   234555543  234689


Q ss_pred             HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCC
Q 020071           91 DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRL  170 (331)
Q Consensus        91 ~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~  170 (331)
                      +++++..+.....+.   .+++||+|||++|.|+..++|+|+|+|||||+++.||++|++++++++||+|||+.+.|.|+
T Consensus        90 d~iR~l~~~~~~~~~---~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~  166 (325)
T PRK06871         90 DQVREINEKVSQHAQ---QGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPP  166 (325)
T ss_pred             HHHHHHHHHHhhccc---cCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCC
Confidence            999999988888876   78899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhhcCCCCHHHHHHHHHHHHc
Q 020071          171 SDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLE  249 (331)
Q Consensus       171 ~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~  249 (331)
                      +.+++.+||.+..     ..++..+..++..++|++..+++.++... ...+.+- ..+.......   ...+++..+.+
T Consensus       167 ~~~~~~~~L~~~~-----~~~~~~~~~~~~l~~g~p~~A~~~~~~~~~~~r~~~~-~~l~~~~~~~---~~~~~~~~~~k  237 (325)
T PRK06871        167 EEQQALDWLQAQS-----SAEISEILTALRINYGRPLLALTFLEQGLLEQRKTFL-RQFWLFYRRR---SPLELLPLFDK  237 (325)
T ss_pred             CHHHHHHHHHHHh-----ccChHHHHHHHHHcCCCHHHHHHHhhCChHHHHHHHH-HHHHHHhccC---CHHHHHHHHhh
Confidence            9999999998753     23455567788899999999988875421 0000000 0011111111   22333333333


Q ss_pred             CCHHH----HHHHHHHHH--HcCCC----HHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHh--cCCCchHHHHHH
Q 020071          250 GKFDD----ACSGLKQLY--DLGYS----PTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRIC--DGVGSYLQLCGL  317 (331)
Q Consensus       250 ~~~~~----~~~~l~~l~--~~g~~----~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~--~~~~~~l~l~~l  317 (331)
                      .+...    ...++++++  ..|.+    ..+....+.+++.+  .+...+..+++.+.++.+++.  .|.|..|.|+..
T Consensus       238 ~~~~~~l~~l~~~~rD~l~~~~~~~~~~~n~D~~~~i~~~a~~--~s~~~L~~~i~~i~~~r~~L~~~~~iN~~L~l~~~  315 (325)
T PRK06871        238 ELVLQQLDWLLAFLSDALKAKLDIASGWICQDLQRGILQFSQQ--QSAQGLLKAHQIIQKVRSDLLQINAVNQELILLDG  315 (325)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHcCCCcccccHhHHHHHHHHHHh--CCHHHHHHHHHHHHHHHHHHHcccccCHHHHHHHH
Confidence            33333    345555653  33322    23334444455555  677889999999999999996  777999999999


Q ss_pred             HHHHHH
Q 020071          318 LAKLSI  323 (331)
Q Consensus       318 ~~~l~~  323 (331)
                      ++.+..
T Consensus       316 l~~~~~  321 (325)
T PRK06871        316 LTRLVT  321 (325)
T ss_pred             HHHHHH
Confidence            988764

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=2.1e-31  Score=234.10  Aligned_cols=273  Identities=19%  Similarity=0.179  Sum_probs=202.1

Q ss_pred             HHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC--------------------CCceEEeecC------
Q 020071           33 AVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY--------------------REAVMELNAS------   85 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~--------------------~~~~~~~~~~------   85 (331)
                      .++.+...  .+++|| +||+||+|+||+++|+.+++.++|+..                    +.++..+.+.      
T Consensus         9 ~~~~l~~~--~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~   86 (342)
T PRK06964          9 DWNRLQAL--RARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEA   86 (342)
T ss_pred             HHHHHHHh--cCCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccc
Confidence            77777775  678999 799999999999999999999999642                    1234334221      


Q ss_pred             -----------------------CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCc
Q 020071           86 -----------------------DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNST  142 (331)
Q Consensus        86 -----------------------~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~  142 (331)
                                             ..++++++++..+.....+.   .++++|+|||++|.|+.+++|+|+|+||+||+++
T Consensus        87 ~~~~~~~~~~~~~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~---~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t  163 (342)
T PRK06964         87 PGAADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFCGVGTH---RGGARVVVLYPAEALNVAAANALLKTLEEPPPGT  163 (342)
T ss_pred             cccccccccchhhcccccccccccccCHHHHHHHHHHhccCCc---cCCceEEEEechhhcCHHHHHHHHHHhcCCCcCc
Confidence                                   23577899998887777665   7889999999999999999999999999999999


Q ss_pred             EEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCc
Q 020071          143 RFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRF  222 (331)
Q Consensus       143 ~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~  222 (331)
                      .||++|++++++++||+|||+.+.|+|++.+++.+||.+.    +  +++.  +.++..++|++..++..++.-   ...
T Consensus       164 ~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~----~--~~~~--~~~l~~~~Gsp~~Al~~~~~~---~~~  232 (342)
T PRK06964        164 VFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ----G--VADA--DALLAEAGGAPLAALALASDE---NRP  232 (342)
T ss_pred             EEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc----C--CChH--HHHHHHcCCCHHHHHHHHCCC---hHH
Confidence            9999999999999999999999999999999999999763    3  3432  335778899999998887431   000


Q ss_pred             cchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHH----HHHHHHH--HcCCCH---HHHHHHHHHHHHhcccChHhHHHH
Q 020071          223 VNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDAC----SGLKQLY--DLGYSP---TDIITTLFRIIKNYEMAEHLKLEF  293 (331)
Q Consensus       223 i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~----~~l~~l~--~~g~~~---~~i~~~l~~~~~~~~~~~~~~~~~  293 (331)
                      . .+.+...+.......++++.+.+.+.+....+    .++++++  ..|.+.   .+....+.+++..  ++...+..+
T Consensus       233 ~-~~~~~~~l~~~~~~~~~~~~~~~~k~~~~~~l~~l~~~lrD~l~~~~~~~~~~~~d~~~~l~~~a~~--~~~~~L~~~  309 (342)
T PRK06964        233 L-RDWTLGQLAAGAACDAFACAETLQKLPVPAVLGWLQRWLYDLLAQRLAGAPRYFPAQRAALARCAAA--VDANALARF  309 (342)
T ss_pred             H-HHHHHHHHhccCchhHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHcCCCceecHhHHHHHHHHHHc--CCHHHHHHH
Confidence            1 11121222222223455555555554544444    4445543  333221   1222344445555  577888999


Q ss_pred             HHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          294 MKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       294 ~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                      ++.+.++...+..|+|+++++|.+++++.+.
T Consensus       310 ~~~i~~~~~~~~~nvn~~L~le~lll~~~~~  340 (342)
T PRK06964        310 AKAVTRQRAVENHPLAARLVFEELFLGYREL  340 (342)
T ss_pred             HHHHHHHHHHhHCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999765

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=9.1e-32  Score=234.51  Aligned_cols=276  Identities=19%  Similarity=0.177  Sum_probs=202.6

Q ss_pred             HHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------CCceEEee--cC------
Q 020071           31 LDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------REAVMELN--AS------   85 (331)
Q Consensus        31 ~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------~~~~~~~~--~~------   85 (331)
                      ...++.+.+.+.++++|| +||+||+|+||+++|..+++.+.|++.                +.++..+.  +.      
T Consensus        10 ~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~   89 (319)
T PRK08769         10 QRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKL   89 (319)
T ss_pred             HHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccc
Confidence            339999999999999999 899999999999999999999998642                12444442  21      


Q ss_pred             -CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccce
Q 020071           86 -DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAI  164 (331)
Q Consensus        86 -~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~  164 (331)
                       ..++++++++..+.....+.   .+++||+|||++|.|+..++|+|+|+||+||++++||++|++++++++||+|||+.
T Consensus        90 ~~~I~idqIR~l~~~~~~~p~---~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~  166 (319)
T PRK08769         90 RTEIVIEQVREISQKLALTPQ---YGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQR  166 (319)
T ss_pred             cccccHHHHHHHHHHHhhCcc---cCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheE
Confidence             12568899999888887776   67899999999999999999999999999999999999999999999999999999


Q ss_pred             eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhhcCCCCHHHHHHH
Q 020071          165 VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKVCDQPHPLHVKNM  243 (331)
Q Consensus       165 i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~~~~~~~~~i~~l  243 (331)
                      +.|.+++.+++..||.+.      .+++..+..++..++|++..+...++... .....+ ...+..+...  ...+.++
T Consensus       167 i~~~~~~~~~~~~~L~~~------~~~~~~a~~~~~l~~G~p~~A~~~~~~~~~~~r~~~-~~~l~~~~~~--~~~~~~~  237 (319)
T PRK08769        167 LEFKLPPAHEALAWLLAQ------GVSERAAQEALDAARGHPGLAAQWLREDGLALRRAV-AQDLEQIASG--RAGAVDV  237 (319)
T ss_pred             eeCCCcCHHHHHHHHHHc------CCChHHHHHHHHHcCCCHHHHHHHhcCchHHHHHHH-HHHHHHhccC--cccHHHH
Confidence            999999999999999752      35666677889999999999988874321 101111 1112111111  1124455


Q ss_pred             HHHHHcCC-HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHH
Q 020071          244 VRNVLEGK-FDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLS  322 (331)
Q Consensus       244 ~~~~~~~~-~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~  322 (331)
                      .+.+.+.+ ......|+.++...... ..++   +   .   -......+....+.+....+..|.|++|.+|.+++++.
T Consensus       238 a~~~~~~~~~~~l~~~~~Dll~~~~~-~~~~---~---~---~~~~~L~~~~~~l~~~~~~~~~~lN~~L~le~lll~~~  307 (319)
T PRK08769        238 AQRWTNDGQADQRLRHAADLALAQAS-AGLT---D---P---SRLHKLATWFDAANRTRDLLRTTVRADLAVTELLLAWR  307 (319)
T ss_pred             HHHHccCCcHHHHHHHHHHHHHHhcC-Cccc---C---h---hhHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHH
Confidence            55544322 34455566665432111 0000   0   0   02233456666777888888899999999999999999


Q ss_pred             HHHhhh
Q 020071          323 IVRETA  328 (331)
Q Consensus       323 ~~~~~~  328 (331)
                      +.....
T Consensus       308 ~~~~~~  313 (319)
T PRK08769        308 EGERQP  313 (319)
T ss_pred             HHhccc
Confidence            876554

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=5e-30  Score=227.60  Aligned_cols=237  Identities=21%  Similarity=0.308  Sum_probs=186.3

Q ss_pred             hhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC------------C--------
Q 020071           17 EKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN------------Y--------   75 (331)
Q Consensus        17 ~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~------------~--------   75 (331)
                      ..++|..+++++||+++...|...+.+|+.|| +||+||+|+|||++|+.+++.+.|..            +        
T Consensus        15 ~~~~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~   94 (351)
T PRK09112         15 GVPSPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQ   94 (351)
T ss_pred             CCCCCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHH
Confidence            34799999999999999999999999999999 89999999999999999999999831            0        


Q ss_pred             -----CCceEEeecC---------CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCC
Q 020071           76 -----REAVMELNAS---------DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNS  141 (331)
Q Consensus        76 -----~~~~~~~~~~---------~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~  141 (331)
                           +.++..+...         ..++++++++..+.+...+.   .++++||||||+|.|+..++|+|++++|+|+.+
T Consensus        95 i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~---~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~  171 (351)
T PRK09112         95 IAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSG---DGNWRIVIIDPADDMNRNAANAILKTLEEPPAR  171 (351)
T ss_pred             HHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccc---cCCceEEEEEchhhcCHHHHHHHHHHHhcCCCC
Confidence                 1123333221         23457888887777666654   678999999999999999999999999999999


Q ss_pred             cEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCC
Q 020071          142 TRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFR  221 (331)
Q Consensus       142 ~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~  221 (331)
                      +.||++++.+.+++++++|||..+.|+|++.+++..||.+.....+  ++++.+..+++.++|++|.+++.++....   
T Consensus       172 ~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~--~~~~~~~~i~~~s~G~pr~Al~ll~~~~~---  246 (351)
T PRK09112        172 ALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG--SDGEITEALLQRSKGSVRKALLLLNYGGL---  246 (351)
T ss_pred             ceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC--CCHHHHHHHHHHcCCCHHHHHHHHhcCcH---
Confidence            9999999999999999999999999999999999999998543333  77899999999999999999999865210   


Q ss_pred             ccchhhhhhhcC--CCCHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 020071          222 FVNQENVFKVCD--QPHPLHVKNMVRNVLEGKFDDACSGLKQL  262 (331)
Q Consensus       222 ~i~~~~v~~~~~--~~~~~~i~~l~~~~~~~~~~~~~~~l~~l  262 (331)
                      .+. ..+...+.  .........+.+.+.+.+....+.|+.++
T Consensus       247 ~~~-~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~~~~~~~~  288 (351)
T PRK09112        247 EII-ATIDQLLAGSGPDARKAHKLADALSGRESEVQFDFFRDH  288 (351)
T ss_pred             HHH-HHHHHHHhhccCCcchHHHHHHHHhCCChHHHHHHHHHH
Confidence            111 12222222  12223446677766666666666666554

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=3.2e-30  Score=220.08  Aligned_cols=258  Identities=16%  Similarity=0.107  Sum_probs=194.6

Q ss_pred             HHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC-----------CCCceEEeecCC---CCChHhHHH
Q 020071           31 LDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN-----------YREAVMELNASD---DRGIDVVRN   95 (331)
Q Consensus        31 ~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~-----------~~~~~~~~~~~~---~~~~~~i~~   95 (331)
                      ...++.|.+.+.+++++| +||+||+|+||+++|..+++.+.|+.           .++++..+.+..   ..+++++++
T Consensus         3 ~~~~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~   82 (290)
T PRK05917          3 SAAWEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRA   82 (290)
T ss_pred             cHHHHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHH
Confidence            356789999999999999 79999999999999999999999953           345565554432   257899999


Q ss_pred             HHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHH
Q 020071           96 KIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI  175 (331)
Q Consensus        96 ~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~  175 (331)
                      ..+.....+.   .++++|+|||++|.|+.+++|+|+++||+||++++||++|+++++++|||+|||+.+.|+|+.    
T Consensus        83 l~~~~~~~p~---e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~~~~----  155 (290)
T PRK05917         83 IKKQIWIHPY---ESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIPMEE----  155 (290)
T ss_pred             HHHHHhhCcc---CCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEccchh----
Confidence            9999888887   789999999999999999999999999999999999999999999999999999999999861    


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHH--HHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHH
Q 020071          176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQ--ALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFD  253 (331)
Q Consensus       176 ~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~--~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~  253 (331)
                                 ...++++.+..++..++|+++.  +...++.    ..    +......    .+.+..+        .+
T Consensus       156 -----------~~~i~~~~~~~l~~~~~g~~~~~~~~~~l~~----~~----~~~~~~~----re~~~~~--------L~  204 (290)
T PRK05917        156 -----------KTLVSKEDIAYLIGYAQGKESVTEVGQIVKG----SA----DTDKQVL----RDKTKAM--------LE  204 (290)
T ss_pred             -----------ccCCCHHHHHHHHHHhCCChhHHHHHHHHhc----ch----HHHHHHH----HHHHHHH--------HH
Confidence                       1147888999999999999962  2222211    10    1000000    1111222        23


Q ss_pred             HHHHHHHHHH--HcCCCHH-HHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhhh
Q 020071          254 DACSGLKQLY--DLGYSPT-DIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETA  328 (331)
Q Consensus       254 ~~~~~l~~l~--~~g~~~~-~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~~~  328 (331)
                      -.+.++++++  ..|.+.. .+.......+...  +...+..+++.+.++.++|.+|+|++++++.+++++.++++++
T Consensus       205 ~ll~~~RD~l~~~~~~~~~~l~~~d~~~~l~~~--~~~~l~~~i~~i~~a~~~l~~N~N~~l~le~l~l~l~~~~~~~  280 (290)
T PRK05917        205 VLLQLFRDRFLLALKVPASALAYPDLLKEILTL--PVLPLEKVLSIIERAVQALDNSSSAPSCLEWVALQLWSLKNRQ  280 (290)
T ss_pred             HHHHHHHHHHHHHcCCchhhhccHHHHHHHHhc--ccccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHH
Confidence            3466777753  4444432 2223332222222  2333779999999999999999999999999999999988765

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=4.2e-30  Score=229.26  Aligned_cols=293  Identities=21%  Similarity=0.263  Sum_probs=205.8

Q ss_pred             cCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC----------------------
Q 020071           19 YRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY----------------------   75 (331)
Q Consensus        19 ~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~----------------------   75 (331)
                      .+|+++++++||+++++.|.+.+.++++|| +||+||+|+||+++|..+++.++|+..                      
T Consensus        13 ~~P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c   92 (365)
T PRK07471         13 PHPRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVA   92 (365)
T ss_pred             CCCCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHH
Confidence            699999999999999999999999999999 899999999999999999999998642                      


Q ss_pred             -------CCceEEeec---C------CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc
Q 020071           76 -------REAVMELNA---S------DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS  139 (331)
Q Consensus        76 -------~~~~~~~~~---~------~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~  139 (331)
                             ..++..+..   .      ..+.++++++....+...+.   .++++|+||||+|.++..++|+|++++|+|+
T Consensus        93 ~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~---~~~~kVviIDead~m~~~aanaLLK~LEepp  169 (365)
T PRK07471         93 RRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAA---EGGWRVVIVDTADEMNANAANALLKVLEEPP  169 (365)
T ss_pred             HHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcc---cCCCEEEEEechHhcCHHHHHHHHHHHhcCC
Confidence                   112333332   1      23567889988887776665   6789999999999999999999999999999


Q ss_pred             CCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhC
Q 020071          140 NSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSG  219 (331)
Q Consensus       140 ~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  219 (331)
                      .++.||++|+++..++++++|||+.+.|.|++.+++.+++.+..    ...+++.+..++..++|+++.+++.++.... 
T Consensus       170 ~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~----~~~~~~~~~~l~~~s~Gsp~~Al~ll~~~~~-  244 (365)
T PRK07471        170 ARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAG----PDLPDDPRAALAALAEGSVGRALRLAGGDGL-  244 (365)
T ss_pred             CCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhc----ccCCHHHHHHHHHHcCCCHHHHHHHhcccch-
Confidence            99999999999999999999999999999999999999998742    2345555678899999999999998864210 


Q ss_pred             CCccchhhhhhhcC---CCCHHHHHHHHHHHHcCC----HHHHHHH----HHHHHHcCCC---HHHH----HHHHHHHHH
Q 020071          220 FRFVNQENVFKVCD---QPHPLHVKNMVRNVLEGK----FDDACSG----LKQLYDLGYS---PTDI----ITTLFRIIK  281 (331)
Q Consensus       220 ~~~i~~~~v~~~~~---~~~~~~i~~l~~~~~~~~----~~~~~~~----l~~l~~~g~~---~~~i----~~~l~~~~~  281 (331)
                        .. .+.+...+.   ......+..+.+.+...+    +...+.|    +.++...+..   ....    ...+.+...
T Consensus       245 --~~-~~~~~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~l~~~l~d~~~~~~~~~~~~~~~~~~~~~l~~~~~  321 (365)
T PRK07471        245 --AL-YRRLTALLDTLPRLDRRALHALADAAAGRDRAARFALFLDLLDRWLARLARAGARGAPPPEAVPGEAALLARLAP  321 (365)
T ss_pred             --HH-HHHHHHHHhccccCCHHHHHHHHHHHHccChHHHHHHHHHHHHHHHHHHHHhhccCCCCccccchhhHHHHhhcc
Confidence              01 111212221   222333455666555554    3333333    3333332111   1111    011111111


Q ss_pred             hcccChHhHHHHHHHHHHHHHHHh-cCCCchHHHHHHHHHHHHH
Q 020071          282 NYEMAEHLKLEFMKEAGFAHMRIC-DGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       282 ~~~~~~~~~~~~~~~l~~~~~~l~-~~~~~~l~l~~l~~~l~~~  324 (331)
                      .  .......++.+.+.+...... .|.|..+.++.++.++...
T Consensus       322 ~--~~~~~~~~~~~~l~~~~~~~~~~~Ln~~l~~~~~l~~~~~~  363 (365)
T PRK07471        322 D--ARLRRWAEVWEKIGRRARRTEAVNLDRKALVLDVFGLLAEA  363 (365)
T ss_pred             c--hhHHHHHHHHHHHHHHHHhhhccCCCHHHHHHHHHHHHHHh
Confidence            1  122223344444443333333 5889999999999998754

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=100.00  E-value=5.8e-30  Score=222.92  Aligned_cols=275  Identities=13%  Similarity=0.135  Sum_probs=200.0

Q ss_pred             HHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC------------------CCceEEeecC---CCCCh
Q 020071           33 AVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY------------------REAVMELNAS---DDRGI   90 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~------------------~~~~~~~~~~---~~~~~   90 (331)
                      .++.+.+.+.++++|| +||+||+|+||+++|+.+++.+.|.+.                  +.++..+.+.   ..+++
T Consensus        11 ~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~v   90 (319)
T PRK06090         11 VWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITV   90 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCH
Confidence            8999999999999999 899999999999999999999998642                  2356555543   34688


Q ss_pred             HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCC
Q 020071           91 DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRL  170 (331)
Q Consensus        91 ~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~  170 (331)
                      +++++..+.....+.   .+++||+|||++|.|+..++|+|+|++||||+++.||++|+++++++|||+|||+.+.|+|+
T Consensus        91 dqiR~l~~~~~~~~~---~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~  167 (319)
T PRK06090         91 EQIRQCNRLAQESSQ---LNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPP  167 (319)
T ss_pred             HHHHHHHHHHhhCcc---cCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCC
Confidence            999998877777765   78899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhhhcCCCCHHHHHHHHHHHHc
Q 020071          171 SDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLE  249 (331)
Q Consensus       171 ~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~  249 (331)
                      +.+++.+|+..    .++  +  ....+++.++|++..+...++... ...... .+.+...+.... ..++.+...+.+
T Consensus       168 ~~~~~~~~L~~----~~~--~--~~~~~l~l~~G~p~~A~~~~~~~~~~~~~~~-~~~l~~~l~~~~-~~~~~~a~~~~~  237 (319)
T PRK06090        168 STAQAMQWLKG----QGI--T--VPAYALKLNMGSPLKTLAMMKEGGLEKYHKL-ERQLVDALSGPV-SDQLKCASLIAA  237 (319)
T ss_pred             CHHHHHHHHHH----cCC--c--hHHHHHHHcCCCHHHHHHHhCCCcHHHHHHH-HHHHHHHHhcCc-ccHHHHHHHHhc
Confidence            99999999975    233  3  235678899999999988875211 000001 112222222222 234455544433


Q ss_pred             CCHHHHHH----HHHHHH--HcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHh--cCCCchHHHHHHHHHH
Q 020071          250 GKFDDACS----GLKQLY--DLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRIC--DGVGSYLQLCGLLAKL  321 (331)
Q Consensus       250 ~~~~~~~~----~l~~l~--~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~--~~~~~~l~l~~l~~~l  321 (331)
                      .+ ...+.    ++.++.  ..|....+....+..+ ..  .+.......+..+.++..++.  .+.|..+.++.+++.+
T Consensus       238 ~~-~~~l~~L~~ll~Dll~~~~g~~~~~~~~~~~~l-~~--~~~~~l~~~~~~l~~~~~~L~~~~~ln~elll~~lll~~  313 (319)
T PRK06090        238 DP-LTHLSWLWLLLTDAQKVHFGVQNEYYLPGSAAL-GP--FTYSGLYVSTAKLERLKEQLQQFSGLNTELLIMNWLIES  313 (319)
T ss_pred             Cc-HHHHHHHHHHHHHHHHHHhCCcchhhhHHHHHH-Hh--hCHHHHHHHHHHHHHHHHHHHhccccCHHHHHHHHHHHH
Confidence            33 23333    344443  2332222322222222 22  355566778888889999987  5669999999999988


Q ss_pred             HHH
Q 020071          322 SIV  324 (331)
Q Consensus       322 ~~~  324 (331)
                      .+-
T Consensus       314 ~~~  316 (319)
T PRK06090        314 REE  316 (319)
T ss_pred             HHH
Confidence            653

>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=99.98  E-value=6.4e-31  Score=213.16  Aligned_cols=197  Identities=20%  Similarity=0.260  Sum_probs=144.2

Q ss_pred             CCCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHH-----cCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceE
Q 020071            6 SSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIAR-----DGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVM   80 (331)
Q Consensus         6 ~~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~-----~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~   80 (331)
                      +...+...|+.++.||++|+|++||++++..+.-+++     +..++|++||||||+||||+|+.+++++     +.++.
T Consensus         5 ~~~~~~~~~l~~~lRP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~-----~~~~~   79 (233)
T PF05496_consen    5 PQEQEEEAPLAERLRPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL-----GVNFK   79 (233)
T ss_dssp             -------S-HHHHTS-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC-----T--EE
T ss_pred             cccCCcchhhHHhcCCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc-----CCCeE
Confidence            3445567789999999999999999999998766554     2457899999999999999999999999     67787


Q ss_pred             EeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCc
Q 020071           81 ELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS------------------NST  142 (331)
Q Consensus        81 ~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~------------------~~~  142 (331)
                      .++++......++...+..         ..++.|+||||+|++++..++.|+.+||+..                  +..
T Consensus        80 ~~sg~~i~k~~dl~~il~~---------l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~F  150 (233)
T PF05496_consen   80 ITSGPAIEKAGDLAAILTN---------LKEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPF  150 (233)
T ss_dssp             EEECCC--SCHHHHHHHHT-----------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----
T ss_pred             eccchhhhhHHHHHHHHHh---------cCCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCc
Confidence            7777655444444444432         2346799999999999999999999999532                  234


Q ss_pred             EEEEeeCCCCCCChhhhccccee-eecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 020071          143 RFALACNVSSKIIEPIQSRCAIV-RFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       143 ~~I~~~~~~~~l~~~l~sr~~~i-~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~  216 (331)
                      .+|.+|+....+.+++++|+.++ ++..++.+|+..++.+-++..++.++++++.+|+++|.|++|-|.++|+.+
T Consensus       151 TligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGtPRiAnrll~rv  225 (233)
T PF05496_consen  151 TLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGTPRIANRLLRRV  225 (233)
T ss_dssp             EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTSHHHHHHHHHHH
T ss_pred             eEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            57888888899999999999886 799999999999999999999999999999999999999999999999875

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.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=99.97  E-value=2.9e-28  Score=210.97  Aligned_cols=277  Identities=13%  Similarity=0.158  Sum_probs=197.5

Q ss_pred             HHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC--------CCCceEEeec-CCCCChHhHHHHHHHHH
Q 020071           32 DAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN--------YREAVMELNA-SDDRGIDVVRNKIKMFA  101 (331)
Q Consensus        32 ~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~--------~~~~~~~~~~-~~~~~~~~i~~~i~~~~  101 (331)
                      .+++.+.+.+++++++| +||+|++|+||+.++..+++.+.|..        ...++..++. ....+++++++..+...
T Consensus         3 ~~~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~~~   82 (299)
T PRK07132          3 NWIKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINKLY   82 (299)
T ss_pred             hHHHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHHhc
Confidence            46788999999999999 58999999999999999999998842        1124455542 23357788888877766


Q ss_pred             hcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHH
Q 020071          102 QKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMV  181 (331)
Q Consensus       102 ~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~  181 (331)
                      ..++  ..++++|+|||+++.++..++|+|++++|+||+++.||+++++++++++|++|||+++.|.|++++++..|+..
T Consensus        83 ~~~~--~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~~  160 (299)
T PRK07132         83 FSSF--VQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLS  160 (299)
T ss_pred             cCCc--ccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHHH
Confidence            6654  12689999999999999999999999999999999999999999999999999999999999999999999976


Q ss_pred             HHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCC--CHHHHHHHHHHHHcCC-----HHH
Q 020071          182 VVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQP--HPLHVKNMVRNVLEGK-----FDD  254 (331)
Q Consensus       182 ~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~--~~~~i~~l~~~~~~~~-----~~~  254 (331)
                      .      .++++.+..++..++ ++++|...+......   . ...+.+.+...  ....+..+.+...+++     ..-
T Consensus       161 ~------~~~~~~a~~~a~~~~-~~~~a~~~~~~~~~~---~-~~~~~~~l~~~~~~~~~l~~~~~~~~~ke~~~~ll~~  229 (299)
T PRK07132        161 K------NKEKEYNWFYAYIFS-NFEQAEKYINKESEN---L-LKKFEEALNKSLKEKYELILFLNKKLTKENALFLLKL  229 (299)
T ss_pred             c------CCChhHHHHHHHHcC-CHHHHHHHHhcCCHH---H-HHHHHHHHHHhhhhHHHHHHHHHhhcChhhHHHHHHH
Confidence            3      367777888888877 599998886542100   0 01111111110  1122333333322211     112


Q ss_pred             HHHHHHHHH--HcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          255 ACSGLKQLY--DLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       255 ~~~~l~~l~--~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      ...|+++++  ..+.+...+... ....+....++   .+++..+.++..++.+|+|..+++|.|++++.+++
T Consensus       230 l~~~~rd~l~~~~~~~~~~i~~~-~~~i~~~~~s~---~~li~~i~~~~~~L~~N~N~~l~~e~lll~l~e~~  298 (299)
T PRK07132        230 LKFFFKSIFANKKKKNPKNIKVA-FSKKKKFKIEF---FELITIIDEFLNSLETNENFNLQKQAFLVKIYEIY  298 (299)
T ss_pred             HHHHHHHHHHHhccCChHhHhhH-HHHHHHHhcCH---HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence            233444443  233444333333 33333322233   34588999999999999999999999999999876

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=99.97  E-value=1.5e-27  Score=209.83  Aligned_cols=273  Identities=18%  Similarity=0.142  Sum_probs=196.1

Q ss_pred             HHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC--------------------CCceEEeecC------
Q 020071           33 AVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY--------------------REAVMELNAS------   85 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~--------------------~~~~~~~~~~------   85 (331)
                      .++.+...  .+++|| +||+||+|+|||++|+.+++.+.|+..                    +.+++.+.+.      
T Consensus         9 ~w~~l~~~--~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~   86 (325)
T PRK08699          9 QWRQIAEH--WERRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPEN   86 (325)
T ss_pred             HHHHHHHh--cCCcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccc
Confidence            67777666  578999 899999999999999999999998532                    2456677653      


Q ss_pred             ----CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcc
Q 020071           86 ----DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSR  161 (331)
Q Consensus        86 ----~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr  161 (331)
                          ..++++++++.++.....+.   .++++|++||+++.|+..++++|++++|+|+.++.||++|++++.++++++||
T Consensus        87 g~~~~~I~id~iR~l~~~~~~~p~---~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SR  163 (325)
T PRK08699         87 GRKLLQIKIDAVREIIDNVYLTSV---RGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSR  163 (325)
T ss_pred             cccCCCcCHHHHHHHHHHHhhCcc---cCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHH
Confidence                23578999999888887776   67899999999999999999999999999998899999999999999999999


Q ss_pred             cceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHH
Q 020071          162 CAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVK  241 (331)
Q Consensus       162 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~  241 (331)
                      |+.+.|.|++.+++..||.+.    ++  +... ..+ ..++|.+..+...  ....     ..+.+.+.+.......+.
T Consensus       164 c~~~~~~~~~~~~~~~~L~~~----~~--~~~~-~~l-~~~~g~p~~~~~~--~~~~-----~r~~~~~~l~~~~~~~~l  228 (325)
T PRK08699        164 CRKMVLPAPSHEEALAYLRER----GV--AEPE-ERL-AFHSGAPLFDEEP--ELRA-----LRIKLLDILAEPRLLKIL  228 (325)
T ss_pred             hhhhcCCCCCHHHHHHHHHhc----CC--CcHH-HHH-HHhCCChhhhcCc--hHHH-----HHHHHHHHHHccChhhHH
Confidence            999999999999999999752    33  3222 123 4567776432110  0000     001222222222334555


Q ss_pred             HHHHHHHcCC--HHH----HHHHHHHHH--HcCCC---HHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCc
Q 020071          242 NMVRNVLEGK--FDD----ACSGLKQLY--DLGYS---PTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS  310 (331)
Q Consensus       242 ~l~~~~~~~~--~~~----~~~~l~~l~--~~g~~---~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~  310 (331)
                      .+.+.+.+.+  ...    ...++++++  ..|..   ..+....+..++..  ++...+..+++.+.++...+..|+|+
T Consensus       229 ~~~~~~~~~k~~~~~~l~~l~~~~rDll~~~~~~~~~~~~d~~~~l~~~a~~--~~~~~L~~~~~~l~~~~~~l~~n~n~  306 (325)
T PRK08699        229 DYAALFDKEKLPLAVFVGWMQKWLVDLGLCLQHMKPVYYPAYEDRLLQTASG--FRPRNVFAAEDMLKQLAPYGFHTLNV  306 (325)
T ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHHHHHHHcCCCcccCHhHHHHHHHHHHh--cCHHHHHHHHHHHHHHHHHhhCCCCH
Confidence            5555554422  333    344555553  22322   12223334444555  57788889999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHhh
Q 020071          311 YLQLCGLLAKLSIVRET  327 (331)
Q Consensus       311 ~l~l~~l~~~l~~~~~~  327 (331)
                      ++.+|.+++++.++.++
T Consensus       307 ~L~le~lll~~~~~~~~  323 (325)
T PRK08699        307 KMQIEHLLINYLELKKE  323 (325)
T ss_pred             HHHHHHHHHHHHHHhcc
Confidence            99999999999887653

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

Probab=99.96  E-value=1.4e-27  Score=213.57  Aligned_cols=287  Identities=35%  Similarity=0.469  Sum_probs=212.8

Q ss_pred             CccccCHHHHHHHHHHHH-cCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC-------------------CCCceEEee
Q 020071           25 CDIVGNLDAVARLGIIAR-DGNMPN-LILAGPPGTGKTTSILALAHELLGPN-------------------YREAVMELN   83 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~-~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~-------------------~~~~~~~~~   83 (331)
                      +++++++.....+..+.. .++.|| +||+||+|+|||++|.++++.+.|+.                   ...++.+++
T Consensus         1 ~~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~   80 (325)
T COG0470           1 DELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELN   80 (325)
T ss_pred             CCcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEec
Confidence            367888888888888877 678999 99999999999999999999999875                   356899999


Q ss_pred             cCCCCCh----HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhh
Q 020071           84 ASDDRGI----DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQ  159 (331)
Q Consensus        84 ~~~~~~~----~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~  159 (331)
                      +++..+.    +.+++........+.   .++++||||||+|.|+.+++|+|++++|+|+.+++||++||++.++.++|+
T Consensus        81 ~s~~~~~~i~~~~vr~~~~~~~~~~~---~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~  157 (325)
T COG0470          81 PSDLRKIDIIVEQVRELAEFLSESPL---EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIR  157 (325)
T ss_pred             ccccCCCcchHHHHHHHHHHhccCCC---CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhh
Confidence            9888663    455555555444443   578999999999999999999999999999999999999999999999999


Q ss_pred             cccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHH-
Q 020071          160 SRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPL-  238 (331)
Q Consensus       160 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~-  238 (331)
                      |||+.+.|+|++......+.+           ++.+..++..++||.|.+++.++..+..  ......+.+........ 
T Consensus       158 SRc~~i~f~~~~~~~~i~~~e-----------~~~l~~i~~~~~gd~r~~i~~lq~~~~~--~~~~~~~~~~~~~~~~~~  224 (325)
T COG0470         158 SRCQRIRFKPPSRLEAIAWLE-----------DQGLEEIAAVAEGDARKAINPLQALAAL--EIGEESIYEALLLALPES  224 (325)
T ss_pred             hcceeeecCCchHHHHHHHhh-----------ccchhHHHHHHHHHHHcCCCHHHHHHHh--cccHHHHHHHHHhhChhh
Confidence            999999999955444444433           5667889999999999999999887643  23333333333332222 


Q ss_pred             ----HHHHHHHHHHcCCHHHHHHHHHH-HHHcCCCHHHHHHHHHHHHHhcc---cChHhHHHHHHHHHHHHHHHhcCCCc
Q 020071          239 ----HVKNMVRNVLEGKFDDACSGLKQ-LYDLGYSPTDIITTLFRIIKNYE---MAEHLKLEFMKEAGFAHMRICDGVGS  310 (331)
Q Consensus       239 ----~i~~l~~~~~~~~~~~~~~~l~~-l~~~g~~~~~i~~~l~~~~~~~~---~~~~~~~~~~~~l~~~~~~l~~~~~~  310 (331)
                          ...+++..... +...+...... ++..+.........+.+......   ............+.....++..+...
T Consensus       225 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  303 (325)
T COG0470         225 LAQLAALELLKLAEN-KFLEALEKLWLLLLLEGLLGEDLLDQLQRELLKLDKALIQEEKAAELLDALAQARRRLLDGLLA  303 (325)
T ss_pred             cccccHHHHHHHHHh-cchhHHHHHHHHHHHcCcchhHHHHHHHHHHhhchhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                44444444432 23333444433 45556655555555544444321   34455678888889999999999999


Q ss_pred             hHHHHHHHHHHHHHHhhh
Q 020071          311 YLQLCGLLAKLSIVRETA  328 (331)
Q Consensus       311 ~l~l~~l~~~l~~~~~~~  328 (331)
                      .++++.++..+.......
T Consensus       304 ~~~~~~~~~~~~~~~~~~  321 (325)
T COG0470         304 LIQLENLLAELLLLQLLL  321 (325)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999998887665443

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=99.96  E-value=9.9e-27  Score=199.55  Aligned_cols=260  Identities=18%  Similarity=0.196  Sum_probs=185.4

Q ss_pred             cCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-------------------CCceEEeecC-CC
Q 020071           29 GNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-------------------REAVMELNAS-DD   87 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~-~~   87 (331)
                      +|+.+++.|.+.+.+++++| +||+||  .||+++|..+++.+.|.+.                   +.++..+.+. ..
T Consensus         6 ~q~~~~~~L~~~~~~~rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~   83 (290)
T PRK07276          6 KQPKVFQRFQTILEQDRLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQV   83 (290)
T ss_pred             HHHHHHHHHHHHHHcCCcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCc
Confidence            57889999999999999999 799996  6899999999999998642                   2344444443 23


Q ss_pred             CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeee
Q 020071           88 RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRF  167 (331)
Q Consensus        88 ~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~  167 (331)
                      ++++++++.+..+...+.   .++++|+|||++|+|+..++|+|+|++|+||+++.||++|++++.++|||+|||+.+.|
T Consensus        84 I~idqIR~l~~~~~~~p~---~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f  160 (290)
T PRK07276         84 IKTDTIRELVKNFSQSGY---EGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHF  160 (290)
T ss_pred             CCHHHHHHHHHHHhhCcc---cCCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeC
Confidence            678999999999988887   78899999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHH
Q 020071          168 SRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNV  247 (331)
Q Consensus       168 ~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~  247 (331)
                      ++ +.+++.+++.+    .|  ++.+....++..+ |+++.++..++.-..    .  + ..        ..+..+...+
T Consensus       161 ~~-~~~~~~~~L~~----~g--~~~~~a~~la~~~-~s~~~A~~l~~~~~~----~--~-~~--------~~~~~~~~~l  217 (290)
T PRK07276        161 PK-NEAYLIQLLEQ----KG--LLKTQAELLAKLA-QSTSEAEKLAQNKKF----L--E-LI--------DQAERFVTIL  217 (290)
T ss_pred             CC-cHHHHHHHHHH----cC--CChHHHHHHHHHC-CCHHHHHHHhCChhH----H--H-HH--------HHHHHHHHHh
Confidence            77 77788777753    34  5555566666665 589999888742100    0  0 00        1122222222


Q ss_pred             HcCCHHHHHHHHHHHHHcCCC---HHHHHHHHHHHH-HhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHH
Q 020071          248 LEGKFDDACSGLKQLYDLGYS---PTDIITTLFRII-KNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLA  319 (331)
Q Consensus       248 ~~~~~~~~~~~l~~l~~~g~~---~~~i~~~l~~~~-~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~  319 (331)
                      ... ...++-.+.++.....+   ...++..+..+. ++  +........+..+.+++....+|+|.+++||.|++
T Consensus       218 ~~~-~~~~~l~~~~l~~~~~~~e~q~~~l~~l~~~~~~~--~~~~~~~~~L~~~~~~r~~w~~Nv~~~~~le~l~l  290 (290)
T PRK07276        218 LKD-KDEAYLQVARLVQLADEKEEQDQVLTLLTLLLAQE--RMQVNVRTQLEAVYQARKMWQSNVSFQNALEYMVL  290 (290)
T ss_pred             ccC-hHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhHHHHHHhccCHHHHHHHHhC
Confidence            222 21222222233222112   122222222222 12  23345677788889999999999999999999863

>PRK05907 hypothetical protein; Provisional

Probab=99.95  E-value=2e-25  Score=194.77  Aligned_cols=274  Identities=12%  Similarity=0.113  Sum_probs=226.1

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCc
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKH  112 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~  112 (331)
                      ....+.+.+++|. |.+++||.+-   ....+.+.+.+..++.    ..+++.+.    .+.+.+..+.+.|+   ++++
T Consensus         6 ~~~~~~~~~~~~~-~~y~~~g~~~---~~~~~~l~~~~~~~~~----~~fdg~~~----~~~~ii~~aetlPf---Faer   70 (311)
T PRK05907          6 SFKDFSQYYEEKR-PAVIVIGSSS---EEDKDIFIELLVSGRK----SEFDGQGL----LQQELLSWTEHFGL---FASQ   70 (311)
T ss_pred             HHHHHHHHHhcCC-ceEEEecCCc---HHHHHHHHHHhCCCcc----ceecCCCC----CHHHHHHHHhcCCc---ccCe
Confidence            3456677788888 8889999987   6666777666543221    33454443    57888999999998   8999


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEE-EeeCCC---CCCChhhhccccee----eecCCCHHHHHHHHHHHHH
Q 020071          113 KVVVLDEADSMTAGAQQALRRTMEIYSNSTRFA-LACNVS---SKIIEPIQSRCAIV----RFSRLSDEEILSRLMVVVQ  184 (331)
Q Consensus       113 ~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I-~~~~~~---~~l~~~l~sr~~~i----~~~~~~~~~~~~~l~~~~~  184 (331)
                      ++|++.+.+.++....+.|.+++++|++++.+| ++. ..   .++.+.+.. +..+    .|.++.+.++..|+.++++
T Consensus        71 RlV~v~~~~~~~~~~~~~L~~Yl~np~~~~~liv~~~-~~d~~kkl~K~i~k-~~~v~~~~e~~~l~e~~L~~Wi~~~~~  148 (311)
T PRK05907         71 ETIGIYQAEKMSSSTQEFLIRYARNPNPHLTLFLFTT-KQECFSSLSKKLSS-ALCLSLFGEWFADRDKRIAQLLIQRAK  148 (311)
T ss_pred             EEEEEecccccccccHHHHHHHHhCCCCCeEEEEEEe-cccHHHHHHHHHhh-cceeccccccCCCCHHHHHHHHHHHHH
Confidence            999999988887777889999999999976666 544 22   123344442 5555    8999999999999999999


Q ss_pred             hcCCCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh---hCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHH
Q 020071          185 EEKVPYVPEGLEAIIFTA-DGDMRQALNNLQATY---SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLK  260 (331)
Q Consensus       185 ~~~~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~---~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~  260 (331)
                      +.|+.++++++++++.++ +||+..+.++++++.   ..++.||.++|..++....++++|++++++..++..+|+++++
T Consensus       149 ~~g~~i~~~a~~~L~~~~~~~nL~~l~~EleKL~ly~g~~~~It~e~V~~lv~~s~e~nIF~L~dai~~~~~~~Al~il~  228 (311)
T PRK05907        149 ELGISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKESLEASDIQSFVVKKEAASLWKLRDALLRRDRVEGHSLLR  228 (311)
T ss_pred             HcCCCcCHHHHHHHHHHccCCCHHHHHHHHHHHHHhcCCCCeECHHHHHHHhcCcccccHHHHHHHHHccCHHHHHHHHH
Confidence            999999999999999999 599999999999974   4467899999999999999999999999999999999999999


Q ss_pred             HHHHc-CCCHHHHHHHHHHHHHhc--------c----------cChHhHHHHHHHHHHHHHHHhcCC-CchHHHHHHHHH
Q 020071          261 QLYDL-GYSPTDIITTLFRIIKNY--------E----------MAEHLKLEFMKEAGFAHMRICDGV-GSYLQLCGLLAK  320 (331)
Q Consensus       261 ~l~~~-g~~~~~i~~~l~~~~~~~--------~----------~~~~~~~~~~~~l~~~~~~l~~~~-~~~l~l~~l~~~  320 (331)
                      +|... |++|..|++.+.|++ -+        +          .+...+.+++..+.++|+++|+|. ++.+.+|.|+++
T Consensus       229 ~Ll~~~ge~p~~ILall~rQf-l~~~k~l~~~g~~~~~p~~vafs~~~L~~~~~~l~~~D~~iKtg~~d~~~~lElli~~  307 (311)
T PRK05907        229 SLLSDMGEDPLGIIAFLRSQC-LYGLRSIEEQSKERKHRIFVAYGKERLLQALNLLFYAESLIKNNVQDPILAVETLVIR  307 (311)
T ss_pred             HHHHhcCCChHHHHHHHHHHH-HHHHHHHHHhcCCCCCCeEEEECHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            99999 999999999988865 21        1          123456899999999999999876 999999999999


Q ss_pred             HHHH
Q 020071          321 LSIV  324 (331)
Q Consensus       321 l~~~  324 (331)
                      +|.+
T Consensus       308 ~~~~  311 (311)
T PRK05907        308 MTNL  311 (311)
T ss_pred             HhcC
Confidence            9853

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.95  E-value=4.2e-27  Score=193.44  Aligned_cols=166  Identities=28%  Similarity=0.435  Sum_probs=143.2

Q ss_pred             HHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCC-------------------CCCceEEeecC-CCCChHhH
Q 020071           35 ARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPN-------------------YREAVMELNAS-DDRGIDVV   93 (331)
Q Consensus        35 ~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~-------------------~~~~~~~~~~~-~~~~~~~i   93 (331)
                      +.|.+.+.+++++| +|||||+|+|||++++.+++.+.|..                   ...++..+... ...+++.+
T Consensus         2 ~~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i   81 (188)
T TIGR00678         2 QQLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQV   81 (188)
T ss_pred             hHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHH
Confidence            46788899999998 79999999999999999999998851                   11123333222 23567888


Q ss_pred             HHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCHH
Q 020071           94 RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDE  173 (331)
Q Consensus        94 ~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~  173 (331)
                      ++.++.+...++   .+++++|||||+|.++.++++.|++++|+|++++.||+++++..++.++++|||.++.|.|++.+
T Consensus        82 ~~i~~~~~~~~~---~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~  158 (188)
T TIGR00678        82 RELVEFLSRTPQ---ESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEE  158 (188)
T ss_pred             HHHHHHHccCcc---cCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHH
Confidence            888888887776   68899999999999999999999999999999999999999889999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHH
Q 020071          174 EILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQA  209 (331)
Q Consensus       174 ~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~  209 (331)
                      ++.+|+.+.    |  +++++++.+++.++|++|.+
T Consensus       159 ~~~~~l~~~----g--i~~~~~~~i~~~~~g~~r~~  188 (188)
T TIGR00678       159 ALLQWLIRQ----G--ISEEAAELLLALAGGSPGAA  188 (188)
T ss_pred             HHHHHHHHc----C--CCHHHHHHHHHHcCCCcccC
Confidence            999999875    4  78999999999999999864

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.

>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=99.95  E-value=5.7e-27  Score=186.82  Aligned_cols=140  Identities=36%  Similarity=0.579  Sum_probs=116.1

Q ss_pred             cCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC------------------CCceEEeecCCC--
Q 020071           29 GNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY------------------REAVMELNASDD--   87 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~------------------~~~~~~~~~~~~--   87 (331)
                      ||+++++.|.+.++++++|| +||+||+|+||+++|..+++.++|...                  ..++..++....  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            89999999999999999999 799999999999999999999998653                  345666666543  


Q ss_pred             -CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceee
Q 020071           88 -RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVR  166 (331)
Q Consensus        88 -~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~  166 (331)
                       .+++++++....+...+.   .++++|+||||+|.|+.+++|+|+++||+||.+++||++|++.+++++|++|||+.+.
T Consensus        81 ~i~i~~ir~i~~~~~~~~~---~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i~  157 (162)
T PF13177_consen   81 SIKIDQIREIIEFLSLSPS---EGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVIR  157 (162)
T ss_dssp             SBSHHHHHHHHHHCTSS-T---TSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEEE
T ss_pred             hhhHHHHHHHHHHHHHHHh---cCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEEe
Confidence             678999988888877776   6789999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCC
Q 020071          167 FSRLS  171 (331)
Q Consensus       167 ~~~~~  171 (331)
                      |+|++
T Consensus       158 ~~~ls  162 (162)
T PF13177_consen  158 FRPLS  162 (162)
T ss_dssp             E----
T ss_pred             cCCCC
Confidence            99875

...

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.95  E-value=9.9e-26  Score=200.89  Aligned_cols=210  Identities=19%  Similarity=0.194  Sum_probs=166.3

Q ss_pred             CCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHc-----CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071            9 SAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARD-----GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus         9 ~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      .....+|..+|||.+|++++|+++.+..+...+..     ...+|++||||+|+|||++|+.+++.+     +..+...+
T Consensus         9 ~~~~~~~~~~~rP~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l-----~~~~~~~~   83 (328)
T PRK00080          9 EEEEDEIERSLRPKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM-----GVNIRITS   83 (328)
T ss_pred             ccccchhhhhcCcCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh-----CCCeEEEe
Confidence            34445789999999999999999999998877753     234569999999999999999999998     44444444


Q ss_pred             cCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCcEEE
Q 020071           84 ASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS------------------NSTRFA  145 (331)
Q Consensus        84 ~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~------------------~~~~~I  145 (331)
                      +........+...+..         .+.+.+++|||+|.++...++.|...+++..                  +.+.+|
T Consensus        84 ~~~~~~~~~l~~~l~~---------l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li  154 (328)
T PRK00080         84 GPALEKPGDLAAILTN---------LEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLI  154 (328)
T ss_pred             cccccChHHHHHHHHh---------cccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEE
Confidence            4433222233333221         2346799999999999888888888888642                  236678


Q ss_pred             EeeCCCCCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-----hC
Q 020071          146 LACNVSSKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-----SG  219 (331)
Q Consensus       146 ~~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-----~~  219 (331)
                      ++++....+.+++++|| ..+.|.+++.+++.++++..+...++.+++++++.|++.++|++|.+.+.++...     .+
T Consensus       155 ~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~  234 (328)
T PRK00080        155 GATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKG  234 (328)
T ss_pred             eecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcC
Confidence            88888889999999998 5689999999999999999999999999999999999999999999999997642     23


Q ss_pred             CCccchhhhhhhc
Q 020071          220 FRFVNQENVFKVC  232 (331)
Q Consensus       220 ~~~i~~~~v~~~~  232 (331)
                      .+.|+.+.+...+
T Consensus       235 ~~~I~~~~v~~~l  247 (328)
T PRK00080        235 DGVITKEIADKAL  247 (328)
T ss_pred             CCCCCHHHHHHHH
Confidence            4567777776544

>PRK05629 hypothetical protein; Validated

Probab=99.94  E-value=2.6e-24  Score=190.84  Aligned_cols=268  Identities=12%  Similarity=0.102  Sum_probs=221.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC-CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN-YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA  127 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~  127 (331)
                      ++|||+...-.......+.+.+..++ ...++..+++.+.    .+.+++. ..+.++   ++++++|+|++++...+..
T Consensus         9 yL~~G~e~~l~~~~~~~i~~~~~~~~~~~~n~~~~d~~e~----~~~~l~~-~~t~sl---F~~~rlV~v~~~~~~~~~~   80 (318)
T PRK05629          9 HLVLGDDEFLAERARLNIVHDIRSSMADSLQVTTLKASEV----SQGELLD-ALSPSL---FGEDRVIVLTNMEQAGKEP   80 (318)
T ss_pred             EEEEeCHHHHHHHHHHHHHHHHhccCCCCCceEEeecccC----CHHHHHH-hhCcCc---cCCceEEEEeChHhcChhH
Confidence            69999988777667676776665443 3567888887765    3455554 345555   8899999999998877767


Q ss_pred             HHHHHHHHHHhcCCcEEEEeeCCC---CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC
Q 020071          128 QQALRRTMEIYSNSTRFALACNVS---SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG  204 (331)
Q Consensus       128 ~~~Ll~~le~~~~~~~~I~~~~~~---~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  204 (331)
                      .+.++.++++|++++.+|+++...   .++.+.++..+.++.|.|+.+.++..|+.+++++.|+.++++++++|+..+++
T Consensus        81 ~~~l~~~l~~~~~~~~Lil~~~~~~~~kk~~K~l~k~~~~ve~~~~~~~~l~~wi~~~~~~~g~~i~~~A~~~L~~~~g~  160 (318)
T PRK05629         81 TDLALSAAVDPSPGIYLIIMHSGGGRTKSMVPKLEKIAVVHEAAKLKPRERPGWVTQEFKNHGVRPTPDVVHALLEGVGS  160 (318)
T ss_pred             HHHHHHHHhCCCCCeEEEEEcCCcchhhHHHHHHHhcceEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCc
Confidence            888999999999988888887532   34556888889999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHhh-CCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-
Q 020071          205 DMRQALNNLQATYS-GFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-  282 (331)
Q Consensus       205 ~~r~~~~~l~~~~~-~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-  282 (331)
                      |+..+.+++++++. .++.||.++|.+++....+.++|++++++..++...|+..+.+|+..|++|..|++.+.+.++. 
T Consensus       161 dl~~l~~EleKL~~~~~~~It~e~V~~~v~~~~~~~iF~l~dAv~~g~~~~Al~~l~~l~~~g~~pi~il~~l~~~~r~l  240 (318)
T PRK05629        161 DLRELASAISQLVEDTQGNVTVEKVRAYYVGVAEVSGFDIADLACAGQVSKAVASTRRALQLGVSPVALAAALSMKVGQI  240 (318)
T ss_pred             cHHHHHHHHHHHHhcCCCCcCHHHHHHHhCCCccchHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHH
Confidence            99999999999863 3567999999999999999999999999999999999999999999999999998887643221 


Q ss_pred             ------------------cccCh---------------HhHHHHHHHHHHHHHHHhc-CCCchHHHHHHHHHHHHH
Q 020071          283 ------------------YEMAE---------------HLKLEFMKEAGFAHMRICD-GVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       283 ------------------~~~~~---------------~~~~~~~~~l~~~~~~l~~-~~~~~l~l~~l~~~l~~~  324 (331)
                                        +++++               ..+.+++..+.++|+.+|+ +.++.+.||.++.+++++
T Consensus       241 ~~l~~~~~~~~~~~ia~~l~i~p~~~~~~~~~ar~~s~~~L~~~l~~l~~~D~~~K~~~~d~~~~lE~~i~~~~~~  316 (318)
T PRK05629        241 ARLYSTRGRIDSFELAKELGMPPFVVEKTAKVARNWSGDAVSEAVILMADLDAAVKGQGGDPEFAIESAVRRVAEL  316 (318)
T ss_pred             HHHHhhcCCCCHHHHHHHcCCChHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHhh
Confidence                              12222               1224889999999999997 459999999999999874

>PRK07452 DNA polymerase III subunit delta; Validated

Probab=99.94  E-value=2.9e-24  Score=191.81  Aligned_cols=273  Identities=17%  Similarity=0.166  Sum_probs=221.9

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCC-CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC--
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPN-YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM--  123 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l--  123 (331)
                      |.++|||++...+...+..+.+.+..+. ..+++..+++.+.   +.+.+.+....+.|+   ++++++|+|++++.+  
T Consensus         2 ~~yll~G~e~~l~~~~~~~l~~~~~~~~~~~fn~~~~d~~~~---~~~~~~~~~~~t~pf---f~~~rlVvv~~~~~~~~   75 (326)
T PRK07452          2 PIYLYWGEDDFALNQAIEKLIDQVVDPEWKSFNYSRLDGDDA---DQAIQALNEAMTPPF---GSGGRLVWLKNSPLCQG   75 (326)
T ss_pred             CEEEEEcChHHHHHHHHHHHHHHhCCchhhhcchhhcCCccc---hHHHHHHHHhcCCCC---CCCceEEEEeCchhhcc
Confidence            5579999999999999999988775432 2345666665443   235666766666676   788999999998654  


Q ss_pred             -CHHHHHHHHHHHHHhcCCcEEEEeeCCC----CCCChhhhcccceeeecCC---CHHHHHHHHHHHHHhcCCCCCHHHH
Q 020071          124 -TAGAQQALRRTMEIYSNSTRFALACNVS----SKIIEPIQSRCAIVRFSRL---SDEEILSRLMVVVQEEKVPYVPEGL  195 (331)
Q Consensus       124 -~~~~~~~Ll~~le~~~~~~~~I~~~~~~----~~l~~~l~sr~~~i~~~~~---~~~~~~~~l~~~~~~~~~~i~~~~~  195 (331)
                       +++..+.|.+++++|++++++|+++...    .+..+.+++.+.+..|.++   +.+++..|+.+++++.|+.++++++
T Consensus        76 ~~~~~~~~L~~~l~~~~~~~~li~~~~~~~d~r~k~~k~l~k~~~~~~~~~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~  155 (326)
T PRK07452         76 CSEELLAELERTLPLIPENTHLLLTNTKKPDGRLKSTKLLQKLAEEKEFSLIPPWDTEGLKQLVERTAQELGVKLTPEAA  155 (326)
T ss_pred             CCHHHHHHHHHHHcCCCCCcEEEEEeCCCcchHHHHHHHHHHceeEEEecCCCcccHHHHHHHHHHHHHHcCCCCCHHHH
Confidence             5677889999999999999998875332    3456677778888888765   4577999999999999999999999


Q ss_pred             HHHHHhcCCCHHHHHHHHHHHhh----CCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHH
Q 020071          196 EAIIFTADGDMRQALNNLQATYS----GFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTD  271 (331)
Q Consensus       196 ~~l~~~~~g~~r~~~~~l~~~~~----~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~  271 (331)
                      +.|+..+++|++.+.+++++++.    ..+.||.++|.+++... ..++|++++++..++...|+..+++|...|++|..
T Consensus       156 ~~L~~~~g~dl~~l~~EleKL~ly~~~~~~~It~~~V~~~v~~~-~~~if~l~dai~~~~~~~A~~~l~~L~~~g~~p~~  234 (326)
T PRK07452        156 ELLAEAVGNDSRRLYNELEKLALYAENSTKPISAEEVKALVSNT-TQNSLQLADALLQGNTGKALALLDDLLDANEPALR  234 (326)
T ss_pred             HHHHHHhCccHHHHHHHHHHHHHhccCCCCccCHHHHHHHhccC-cCcHHHHHHHHHCCCHHHHHHHHHHHHHCCCcHHH
Confidence            99999999999999999999854    25579999999998876 57899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh---------------------ccc-ChHh---------------HHHHHHHHHHHHHHHhcCCCchHHH
Q 020071          272 IITTLFRIIKN---------------------YEM-AEHL---------------KLEFMKEAGFAHMRICDGVGSYLQL  314 (331)
Q Consensus       272 i~~~l~~~~~~---------------------~~~-~~~~---------------~~~~~~~l~~~~~~l~~~~~~~l~l  314 (331)
                      |+..+.+.++.                     +|+ ++..               +.+++..+.++|+++|++.++...|
T Consensus       235 il~~l~~~~r~l~~~k~~~~~G~~~~~~ia~~lgi~~p~~~~~~~~~~~~~s~~~L~~~l~~L~~~D~~iK~g~~~~~~l  314 (326)
T PRK07452        235 IVATLTGQFRTWLWVKLLVESGERDVKVIAKAAGIGNPKRIYFLRKEVQGLSSQQLLKLLPLLLDLEASLKQGANPINAL  314 (326)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCcHHHHHHHhCCCCcHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            99887664332                     222 2211               2488999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 020071          315 CGLLAKLSIVRE  326 (331)
Q Consensus       315 ~~l~~~l~~~~~  326 (331)
                      |.++.++|++++
T Consensus       315 e~~i~~~~~~~~  326 (326)
T PRK07452        315 QDKLIELCQLLQ  326 (326)
T ss_pred             HHHHHHHHHhhC
Confidence            999999999874

>PRK07914 hypothetical protein; Reviewed

Probab=99.94  E-value=3.8e-24  Score=189.88  Aligned_cols=271  Identities=10%  Similarity=0.076  Sum_probs=225.1

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcC-CC-CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH
Q 020071           48 NLILAGPPGTGKTTSILALAHELLG-PN-YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA  125 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~-~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~  125 (331)
                      .++|||++-.........+.+.... ++ ...++..+++.+.    .+.+ +..+.+.|+   ++++++|+|+++..+..
T Consensus         7 iYll~G~E~~l~~~~~~~i~~~~~~~~~~~~~n~~~~d~~~~----~~~~-i~~~~t~pl---F~~rRlV~v~~~~~~~~   78 (320)
T PRK07914          7 LHLVLGDEELLVERAVAAVLRSARQRAGTADVPVSRMRAGDV----STYE-LAELLSPSL---FAEERVVVLEAAAEAGK   78 (320)
T ss_pred             eEEEEecHHHHHHHHHHHHHHHHhcCcCCCCCceEEeccccC----CHHH-HHHhcCCCC---CCCceEEEEeChHhccH
Confidence            3699999998888888888877654 23 3567788877665    2344 455556666   89999999999987777


Q ss_pred             HHHHHHHHHHHHhcCCcEEEEeeCCC---CCCChhhhccc-ceeeecCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Q 020071          126 GAQQALRRTMEIYSNSTRFALACNVS---SKIIEPIQSRC-AIVRFSRL-SDEEILSRLMVVVQEEKVPYVPEGLEAIIF  200 (331)
Q Consensus       126 ~~~~~Ll~~le~~~~~~~~I~~~~~~---~~l~~~l~sr~-~~i~~~~~-~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~  200 (331)
                      +..+.|..++++|++.+++|++++..   .++.++++... .++.|.|+ +..++..|+.+++++.|+.+++++++.|+.
T Consensus        79 ~~~~~l~~~l~~~~~~t~lil~~~~~~~~kk~~K~L~k~g~~~v~~~~~~~~~~l~~wi~~~a~~~g~~i~~~A~~~L~~  158 (320)
T PRK07914         79 DAAALILSAAADLPPGTVLVVVHSGGGRAKALANQLRKLGAEVHPCARITKAAERADFVRKEFRSLRVKVDDDTVTALLD  158 (320)
T ss_pred             HHHHHHHHHHhCCCCCeEEEEEecCCcchhHHHHHHHHCCCEEEecCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            77889999999999988888875432   34556787775 58899999 999999999999999999999999999999


Q ss_pred             hcCCCHHHHHHHHHHHhh-CCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 020071          201 TADGDMRQALNNLQATYS-GFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRI  279 (331)
Q Consensus       201 ~~~g~~r~~~~~l~~~~~-~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~  279 (331)
                      +.++|+..+.+++++++. .++.||.++|.+++....+.++|++++++..++..+|+..+.+|...|++|..|+..+.+.
T Consensus       159 ~~g~dl~~l~~EleKL~~~~~~~It~e~V~~~v~~~~~~~vf~L~dAi~~g~~~~A~~~l~~L~~~ge~p~~il~~l~~~  238 (320)
T PRK07914        159 AVGSDLRELASACSQLVADTGGAVDAAAVRRYHSGKAEVKGFDIADKAVAGDVAGAAEALRWAMMRGEPHVVLADALAEA  238 (320)
T ss_pred             HHCccHHHHHHHHHHHhcCCCCCcCHHHHHHHcCCCeechHHHHHHHHHCCCHHHHHHHHHHHHHCCCchHHHHHHHHHH
Confidence            999999999999999864 4568999999999999999999999999999999999999999999999999998887664


Q ss_pred             HHh-----------------cccC---------------hHhHHHHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHh
Q 020071          280 IKN-----------------YEMA---------------EHLKLEFMKEAGFAHMRICDG-VGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       280 ~~~-----------------~~~~---------------~~~~~~~~~~l~~~~~~l~~~-~~~~l~l~~l~~~l~~~~~  326 (331)
                      ++.                 ++++               ...+.+++..+.++|..+|++ .++.+.||.++++++++..
T Consensus       239 ~r~L~~~k~~~~~~~~i~~~l~i~p~~~~~~~~~~~~~s~~~L~~~l~~l~~~D~~lK~~~~~~~~~lE~~i~~~~~~~~  318 (320)
T PRK07914        239 VHTIARVGPLSGDPYRLAGELGMPPWRVQKAQKQARRWSRDTVATAMRVVAALNADVKGAAADADYALESAVRRVAELVA  318 (320)
T ss_pred             HHHHHHHHHhcCCHHHHHHHcCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHhc
Confidence            432                 2222               222358999999999999976 5999999999999998653

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.94  E-value=1.4e-25  Score=210.37  Aligned_cols=223  Identities=23%  Similarity=0.274  Sum_probs=171.9

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCC---C--CCCceEEeecCC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP---N--YREAVMELNASD   86 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~---~--~~~~~~~~~~~~   86 (331)
                      +.||.+||||.+|++++|++..++.++..+......|++|+||+|+|||++|+.+++.....   .  ...+++++++..
T Consensus        52 ~~~~~~~~rp~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~  131 (531)
T TIGR02902        52 TEPLSEKTRPKSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATT  131 (531)
T ss_pred             cchHHHhhCcCCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEcccc
Confidence            45999999999999999999999999988877777789999999999999999998754321   1  135788888753


Q ss_pred             CC-ChHhHHH-HHHH----HHh-------c------ccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh---------
Q 020071           87 DR-GIDVVRN-KIKM----FAQ-------K------KVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY---------  138 (331)
Q Consensus        87 ~~-~~~~i~~-~i~~----~~~-------~------~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~---------  138 (331)
                      .. ....+.+ .+..    ...       .      +-......+++++|||++.|+...|+.|+++||+.         
T Consensus       132 ~~~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~  211 (531)
T TIGR02902       132 ARFDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYY  211 (531)
T ss_pred             ccCCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeeccccc
Confidence            21 1011111 1100    000       0      00011345689999999999999999999999852         


Q ss_pred             -------------------cCCcEEEEee-CCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHH
Q 020071          139 -------------------SNSTRFALAC-NVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAI  198 (331)
Q Consensus       139 -------------------~~~~~~I~~~-~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l  198 (331)
                                         +.++++|++| +++..+++++++||..+.|+|++.+++..+++..+++.++.+++++++.|
T Consensus       212 ~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrsR~~~I~f~pL~~eei~~Il~~~a~k~~i~is~~al~~I  291 (531)
T TIGR02902       212 NSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRSRCVEIFFRPLLDEEIKEIAKNAAEKIGINLEKHALELI  291 (531)
T ss_pred             cccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhhhhheeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHH
Confidence                               2345676665 45789999999999999999999999999999999999999999999998


Q ss_pred             HHhcCCCHHHHHHHHHHHh-----hCCCccchhhhhhhcCCC
Q 020071          199 IFTADGDMRQALNNLQATY-----SGFRFVNQENVFKVCDQP  235 (331)
Q Consensus       199 ~~~~~g~~r~~~~~l~~~~-----~~~~~i~~~~v~~~~~~~  235 (331)
                      ..++. |.|.+.+.++.++     .+...|+.+++..++...
T Consensus       292 ~~y~~-n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~~  332 (531)
T TIGR02902       292 VKYAS-NGREAVNIVQLAAGIALGEGRKRILAEDIEWVAENG  332 (531)
T ss_pred             HHhhh-hHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCCc
Confidence            88775 8999999998764     234579999999887653

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.

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

Probab=99.93  E-value=1.4e-23  Score=173.60  Aligned_cols=200  Identities=19%  Similarity=0.221  Sum_probs=162.3

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHc-----CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARD-----GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG   89 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (331)
                      .....||+.|+|++||+++++.|.-+++.     ..+.|+|||||||.||||+|..+++++     +.++....++....
T Consensus        16 ~e~~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em-----gvn~k~tsGp~leK   90 (332)
T COG2255          16 IERSLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL-----GVNLKITSGPALEK   90 (332)
T ss_pred             hhcccCcccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh-----cCCeEecccccccC
Confidence            56678999999999999999988766653     356789999999999999999999999     66666655555544


Q ss_pred             hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCcEEEEeeCCC
Q 020071           90 IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS------------------NSTRFALACNVS  151 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~------------------~~~~~I~~~~~~  151 (331)
                      ..++..++..         -.++.|+||||+|++++...+.|...||++.                  +...+|.+|+..
T Consensus        91 ~gDlaaiLt~---------Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~  161 (332)
T COG2255          91 PGDLAAILTN---------LEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRA  161 (332)
T ss_pred             hhhHHHHHhc---------CCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeecccc
Confidence            4444444432         2357799999999999999999999999532                  234578888888


Q ss_pred             CCCChhhhcccce-eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH-----hhCCCccch
Q 020071          152 SKIIEPIQSRCAI-VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT-----YSGFRFVNQ  225 (331)
Q Consensus       152 ~~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~-----~~~~~~i~~  225 (331)
                      ..+..++++||.+ .++.-++.+|+..++.+-++.-++.++++++..|++++.|.+|-|.++|...     ..+...|+.
T Consensus       162 G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~V~~~~~I~~  241 (332)
T COG2255         162 GMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVKGDGDIDR  241 (332)
T ss_pred             ccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCCcHHHHHHHHHHHHHHHHhcCCcccH
Confidence            9999999999865 4888899999999999999999999999999999999999999999999754     244455554


Q ss_pred             hhh
Q 020071          226 ENV  228 (331)
Q Consensus       226 ~~v  228 (331)
                      +.+
T Consensus       242 ~ia  244 (332)
T COG2255         242 DIA  244 (332)
T ss_pred             HHH
Confidence            433

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.93  E-value=7.7e-24  Score=187.47  Aligned_cols=197  Identities=19%  Similarity=0.251  Sum_probs=155.2

Q ss_pred             CCCCccccCHHHHHHHHHHHH-----cCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHH
Q 020071           22 TKVCDIVGNLDAVARLGIIAR-----DGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNK   96 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~-----~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~   96 (331)
                      ++|++++|+++.+..|..++.     .+..+|++|+||+|+|||++|+.+++.+.     ..+...+.........+.+.
T Consensus         1 ~~~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~-----~~~~~~~~~~~~~~~~l~~~   75 (305)
T TIGR00635         1 KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMG-----VNLKITSGPALEKPGDLAAI   75 (305)
T ss_pred             CCHHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhC-----CCEEEeccchhcCchhHHHH
Confidence            478999999999999998887     34556799999999999999999999983     34444443332233333333


Q ss_pred             HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCcEEEEeeCCCCCCChhh
Q 020071           97 IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS------------------NSTRFALACNVSSKIIEPI  158 (331)
Q Consensus        97 i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~------------------~~~~~I~~~~~~~~l~~~l  158 (331)
                      +..         .+...+++|||+|.++...++.|+.++++..                  +.+.+|.+++....+.+++
T Consensus        76 l~~---------~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l  146 (305)
T TIGR00635        76 LTN---------LEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPL  146 (305)
T ss_pred             HHh---------cccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHH
Confidence            322         1345799999999999999999998887432                  2366788888888999999


Q ss_pred             hcccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-----hCCCccchhhhhhhc
Q 020071          159 QSRCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-----SGFRFVNQENVFKVC  232 (331)
Q Consensus       159 ~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-----~~~~~i~~~~v~~~~  232 (331)
                      ++||. .+.|.|++.+++.+++++.+...++.+++++++.+++.++|++|.+.+.++.+.     .+...|+.+.+...+
T Consensus       147 ~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l  226 (305)
T TIGR00635       147 RDRFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKAL  226 (305)
T ss_pred             HhhcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHH
Confidence            99994 579999999999999999999999999999999999999999999998887652     233557777776544

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.

>PRK06585 holA DNA polymerase III subunit delta; Reviewed

Probab=99.92  E-value=3.8e-22  Score=179.34  Aligned_cols=283  Identities=12%  Similarity=0.101  Sum_probs=224.3

Q ss_pred             HHHHHHc--CCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCce
Q 020071           37 LGIIARD--GNMPNLILAGPPGTGKTTSILALAHELLGPN-YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHK  113 (331)
Q Consensus        37 l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  113 (331)
                      +...+..  +..|.++|||++.......+..+.+.+...+ ..+++..+++.+..  ..+.+.+..+.+.++   +++++
T Consensus         9 ~~~~l~~~~~~~~~yll~G~e~~li~~~~~~l~~~~~~~~~~~fn~~~~~~~e~~--~~~~~~~~~~~t~sl---F~~~r   83 (343)
T PRK06585          9 VDRFLARPDPKIRAVLLYGPDRGLVRERARRLAKSVVPDLDDPFAVVRLDGDDLD--ADPARLEDEANAISL---FGGRR   83 (343)
T ss_pred             HHHHHhCCCCCCeEEEEeCCchHHHHHHHHHHHHHhcCCCCCCcceeeccHHHhh--cCHHHHHHHHhCCCC---CCCce
Confidence            3444443  3445579999999999999999988875432 23455555543321  126677788888887   89999


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC---CCCChhhh--cccceeeecCCCHHHHHHHHHHHHHhcCC
Q 020071          114 VVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS---SKIIEPIQ--SRCAIVRFSRLSDEEILSRLMVVVQEEKV  188 (331)
Q Consensus       114 vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~---~~l~~~l~--sr~~~i~~~~~~~~~~~~~l~~~~~~~~~  188 (331)
                      +|+|++++   ....+.|..+++.|++++++|+.+...   .++.+.+.  ..+..+.|.+++..++..|+.+++++.|+
T Consensus        84 lViv~~~~---~~~~~~L~~~l~~~~~~~~lil~~~~~~~~~kl~k~~~~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~  160 (343)
T PRK06585         84 LIWVRAGS---KNLAAALKALLESPPGDAFIVIEAGDLKKGSSLRKLFETAAYAAAIPCYADDERDLARLIDDELAEAGL  160 (343)
T ss_pred             EEEEECCc---hhHHHHHHHHHcCCCCCcEEEEEcCCCCcccHHHHHHhcCCCeeEEecCCCCHHHHHHHHHHHHHHCCC
Confidence            99999654   345678999999999889888876543   23334342  23566799999999999999999999999


Q ss_pred             CCCHHHHHHHHHhcCCCHHHHHHHHHHHhh---CCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 020071          189 PYVPEGLEAIIFTADGDMRQALNNLQATYS---GFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDL  265 (331)
Q Consensus       189 ~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~---~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~  265 (331)
                      .++++++++|++.++||++.+.+++++++.   +.+.||.++|.+++....+.++|++++++..++...|+..+..|+..
T Consensus       161 ~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~~~~It~edV~~lv~~~~e~~if~l~dai~~~~~~~a~~~l~~ll~~  240 (343)
T PRK06585        161 RITPDARALLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDASALSLDDAADAALAGDLAAFERALDRALAE  240 (343)
T ss_pred             CCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHhCCcccccHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            999999999999999999999999999853   34679999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHhc---------c----------------------------cChHhHHHHHHHHHHHHHHHhcCC
Q 020071          266 GYSPTDIITTLFRIIKNY---------E----------------------------MAEHLKLEFMKEAGFAHMRICDGV  308 (331)
Q Consensus       266 g~~~~~i~~~l~~~~~~~---------~----------------------------~~~~~~~~~~~~l~~~~~~l~~~~  308 (331)
                      |++|..|+..+.+.++.+         |                            ++...+.+++..+.++|.+++++.
T Consensus       241 g~~p~~il~~L~~~~r~L~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~a~~~s~~~L~~~l~~l~~~d~~lK~~~  320 (343)
T PRK06585        241 GTAPVLILRAALRHFQRLHIVRLKVENGKSAEQAIASLRPPVFFKRKPDFEKALRRWSLERLLRALERLQAAELDCRRNP  320 (343)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHhhCCCCCcchHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCC
Confidence            999999999887755431         1                            111112489999999999999766


Q ss_pred             -CchHHHHHHHHHHHHHHhh
Q 020071          309 -GSYLQLCGLLAKLSIVRET  327 (331)
Q Consensus       309 -~~~l~l~~l~~~l~~~~~~  327 (331)
                       ++.+.+|.+++++|....+
T Consensus       321 ~~~~~~le~~i~~~~~~~~~  340 (343)
T PRK06585        321 ALADAIARRVLLSIAVRARR  340 (343)
T ss_pred             CcHHHHHHHHHHHHHHHHHh
Confidence             8889999999999976554

>PRK08487 DNA polymerase III subunit delta; Validated

Probab=99.92  E-value=2.3e-22  Score=179.00  Aligned_cols=280  Identities=15%  Similarity=0.177  Sum_probs=225.4

Q ss_pred             HHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCce
Q 020071           35 ARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHK  113 (331)
Q Consensus        35 ~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  113 (331)
                      ..+.+.++++.+++ ++|||++-.-.......+.+.+..++.... +.++  +    ..+.+.+..+.+.|+   +++++
T Consensus         4 ~~l~~~lk~~~l~~vyll~GeE~yli~~~~~~i~~~~~~~~~~~~-~~~~--~----~~~~~i~~~~~t~pl---F~~~r   73 (328)
T PRK08487          4 KELDTLLKQNKLPNAFLLYGEDEFQIELYAKKISEKFKPENELKT-LYFD--E----YDFEQAKDFLSQSSL---FGGKN   73 (328)
T ss_pred             HHHHHHHhcCCCCceEEEecCchhHHHHHHHHHHHHhcCchHhhh-hchh--h----ccHHHHHHHHhcccc---cCCce
Confidence            46777888887766 699999999999999999887754332221 2222  1    246778888888887   89999


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC---CCChhhhcc--cceeeecCCCHHHHHHHHHHHHHhcCC
Q 020071          114 VVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS---KIIEPIQSR--CAIVRFSRLSDEEILSRLMVVVQEEKV  188 (331)
Q Consensus       114 vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~---~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~~~~~  188 (331)
                      +|+|+++..+.....+.|..+++.|++.+++|++.....   ++.+.+...  +..+.|.++++.++..|+.+++++.|+
T Consensus        74 lViv~~~~~~~~~~~~~L~~~l~~~~~~~~lv~~~~~~~k~kkl~k~~~~~k~~~~v~~~~~~~~~l~~~i~~~~~~~g~  153 (328)
T PRK08487         74 LLIIKLDKKIPKKELKLLIELCEKNSDNYFIIELYGADSKTKDIEKLFQKKDEAVFVRFFKPNAREALELLQERAKELGL  153 (328)
T ss_pred             EEEEecccccCHHHHHHHHHHHhcCCCCEEEEEecCCcchhHHHHHHhccCCCceEEEeeCCCHHHHHHHHHHHHHHhCC
Confidence            999999877777677899999999988777776544332   222333333  567899999999999999999999999


Q ss_pred             CCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC
Q 020071          189 PYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYS  268 (331)
Q Consensus       189 ~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~  268 (331)
                      .++++++++|+..+++|+..+.++++++....+.||.++|..++....+.++|++++++..++  .++..+.+|...|++
T Consensus       154 ~i~~~a~~~L~~~~g~dl~~l~~ELeKL~ly~~~It~edV~~~v~~~~e~~vF~l~dai~~g~--~a~~~l~~L~~~g~~  231 (328)
T PRK08487        154 DIDQNALNHLYFIHNEDLALAANELEKLAILNEPITLKDIQELVFGLGSVSFEDFFEKLLNKK--DIKDDLEKLLEEGFN  231 (328)
T ss_pred             CCCHHHHHHHHHHhCcHHHHHHHHHHHHHHhcCCCCHHHHHHHhcccccccHHHHHHHHHCCC--cHHHHHHHHHHCCCC
Confidence            999999999999999999999999999876566899999999999999999999999999988  578899999999999


Q ss_pred             HHHHHHHHHHHHHhc-------------------cc--ChH---------------hHHHHHHHHHHHHHHHhcCC--Cc
Q 020071          269 PTDIITTLFRIIKNY-------------------EM--AEH---------------LKLEFMKEAGFAHMRICDGV--GS  310 (331)
Q Consensus       269 ~~~i~~~l~~~~~~~-------------------~~--~~~---------------~~~~~~~~l~~~~~~l~~~~--~~  310 (331)
                      |..|++.+.+.++.+                   ++  |+.               .+.+++..+.++|+.+++|.  +.
T Consensus       232 pi~Il~~L~r~~~~L~~i~~~~~~~~~~~~a~~~~~~~~~f~~~~~~~q~~~~s~~~L~~~l~~L~e~D~~lK~g~~~~~  311 (328)
T PRK08487        232 EIALLNSLERFFYQLFLFFAYIKINGKPDAKEILGYKPPKQIAENLAKQAIKIKEAQYKEIFELLLEWELELKTGQKIDK  311 (328)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHhCCCCCHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHcCCCccH
Confidence            999998887754331                   22  111               12489999999999999874  77


Q ss_pred             hHHHHHHHHHHHHHHh
Q 020071          311 YLQLCGLLAKLSIVRE  326 (331)
Q Consensus       311 ~l~l~~l~~~l~~~~~  326 (331)
                      .+.++..++++..+++
T Consensus       312 ~~~~~~~~~~~~~~~~  327 (328)
T PRK08487        312 NLFLLSTLIKIQKILN  327 (328)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            7888999999988764

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

Probab=99.92  E-value=2.9e-23  Score=190.78  Aligned_cols=204  Identities=27%  Similarity=0.403  Sum_probs=174.8

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHc--------------------------------CCCCe--EEEeCCCCccH
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARD--------------------------------GNMPN--LILAGPPGTGK   59 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~--------------------------------~~~~~--~ll~G~~G~GK   59 (331)
                      .|.++|+|+.|.|++|.+..-+.+..|++.                                ++++.  +||+||||.||
T Consensus       260 LWVdky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGK  339 (877)
T KOG1969|consen  260 LWVDKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGK  339 (877)
T ss_pred             eeecccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCCh
Confidence            699999999999999999999988888764                                22333  69999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCC-CCCCceEEEEeCCCCCCHHHHHHHHHHHHH-
Q 020071           60 TTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTL-PPGKHKVVVLDEADSMTAGAQQALRRTMEI-  137 (331)
Q Consensus        60 t~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~-~~~~~~vviide~d~l~~~~~~~Ll~~le~-  137 (331)
                      ||+|+.+|+..     +..++++|+++.+....+.+.+..+.+..... ..+++..+||||+|.-...+.+.++..++. 
T Consensus       340 TTLAHViAkqa-----GYsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~~~~Vdvilslv~a~  414 (877)
T KOG1969|consen  340 TTLAHVIAKQA-----GYSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAPRAAVDVILSLVKAT  414 (877)
T ss_pred             hHHHHHHHHhc-----CceEEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccCCcHHHHHHHHHHHHhh
Confidence            99999999998     89999999999999999999998888766554 346789999999999999999999998871 


Q ss_pred             -----hc---------------CCcEEEEeeCCCC-CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHH
Q 020071          138 -----YS---------------NSTRFALACNVSS-KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLE  196 (331)
Q Consensus       138 -----~~---------------~~~~~I~~~~~~~-~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~  196 (331)
                           .+               -.-.+|++||+.. --+..|+--|.++.|.|++..-+.+.|+.+|.++|...+..++.
T Consensus       415 ~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLYaPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~mr~d~~aL~  494 (877)
T KOG1969|consen  415 NKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLYAPALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENMRADSKALN  494 (877)
T ss_pred             cchhhcCcccchhhhhhhccccccCCEEEEecCccchhhhhcccceEEEEecCCChhHHHHHHHHHHhhhcCCCCHHHHH
Confidence                 11               1235899999853 23355666689999999999999999999999999999999999


Q ss_pred             HHHHhcCCCHHHHHHHHHHHhhCCCc
Q 020071          197 AIIFTADGDMRQALNNLQATYSGFRF  222 (331)
Q Consensus       197 ~l~~~~~g~~r~~~~~l~~~~~~~~~  222 (331)
                      .|++++.+|+|.++|.||.++.+.+.
T Consensus       495 ~L~el~~~DIRsCINtLQfLa~~~~r  520 (877)
T KOG1969|consen  495 ALCELTQNDIRSCINTLQFLASNVDR  520 (877)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHhccc
Confidence            99999999999999999999865544

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=99.91  E-value=8.2e-23  Score=170.85  Aligned_cols=161  Identities=12%  Similarity=0.112  Sum_probs=130.8

Q ss_pred             CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-----------------CCceEEeecC-CCCChHhHHHHHHHHHhccc
Q 020071           45 NMPN-LILAGPPGTGKTTSILALAHELLGPNY-----------------REAVMELNAS-DDRGIDVVRNKIKMFAQKKV  105 (331)
Q Consensus        45 ~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-----------------~~~~~~~~~~-~~~~~~~i~~~i~~~~~~~~  105 (331)
                      ..|| +||+||+|+||..+|.++++.+.|+..                 +.++..+.+. ...+++++++..+.+...++
T Consensus         5 ~~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~   84 (261)
T PRK05818          5 NKTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSV   84 (261)
T ss_pred             CCCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCch
Confidence            4577 799999999999999999999998631                 1234433322 24678899999888776553


Q ss_pred             CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCC----------CHHHH
Q 020071          106 TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRL----------SDEEI  175 (331)
Q Consensus       106 ~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~----------~~~~~  175 (331)
                        ..++++|+|||++|+|+.+++|+|++++||||+++.||++|++++.+++|++|||+.+.|+++          ++.++
T Consensus        85 --e~~~~KV~II~~ae~m~~~AaNaLLK~LEEPp~~t~fiLit~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~~~~~~~i  162 (261)
T PRK05818         85 --ESNGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNILNTILSRCVQYVVLSKEKKVPFKVESNDRYF  162 (261)
T ss_pred             --hcCCCEEEEeccHhhhCHHHHHHHHHhhcCCCCCeEEEEEECChHhCchHhhhheeeeecCChhhhcccccccChHHH
Confidence              125689999999999999999999999999999999999999999999999999999999888          55666


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 020071          176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       176 ~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~  216 (331)
                      .+.+...   .  .+++    .++..++|++.++...++.+
T Consensus       163 ~~~L~~~---~--~~d~----~i~~~a~g~~~~a~~l~~~l  194 (261)
T PRK05818        163 QYILLSF---Y--SVDE----QLQAYNNGSFSKLKNIIETL  194 (261)
T ss_pred             HHHHHHc---c--CccH----HHHHHcCCCHHHHHHHHHHH
Confidence            6666542   2  2444    67788899999999998854

>TIGR01128 holA DNA polymerase III, delta subunit

Probab=99.90  E-value=2.3e-21  Score=171.51  Aligned_cols=254  Identities=16%  Similarity=0.168  Sum_probs=206.6

Q ss_pred             HHHHHHHHhcCCCC-CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-HHHHHHHHHHHHHhc
Q 020071           62 SILALAHELLGPNY-REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-AGAQQALRRTMEIYS  139 (331)
Q Consensus        62 la~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-~~~~~~Ll~~le~~~  139 (331)
                      .+..+.+.+..+++ ..+++.+++.+.    .+.+........++   ++++++|+|++++.+. ....+.|.+++++++
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~e~----~~~~l~~~~~~~sl---f~~~kliii~~~~~~~~~~~~~~L~~~l~~~~   75 (302)
T TIGR01128         3 AADAIRAAALAQGFDEFNVFRIDGEEF----DWNQLLEEAQTLPL---FSERRLVELRNPEGKPGAKGLKALEEYLANPP   75 (302)
T ss_pred             HHHHHHHHHHhCCCchheeeeeccCCC----CHHHHHHHhhccCc---ccCCeEEEEECCCCCCCHHHHHHHHHHHhcCC
Confidence            34555555543332 466777776655    34446666666766   7889999999999986 456799999999999


Q ss_pred             CCcEEEEeeCCCC---CCChhhh--cccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHH
Q 020071          140 NSTRFALACNVSS---KIIEPIQ--SRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ  214 (331)
Q Consensus       140 ~~~~~I~~~~~~~---~l~~~l~--sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~  214 (331)
                      +++.+|++++...   ++.+.+.  ++|.++.|.+++..++..|+...+++.|+.++++++++++..++||++.+.++++
T Consensus        76 ~~~~~i~~~~~~~~~~~~~k~~~~~~~~~~i~~~~~~~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~  155 (302)
T TIGR01128        76 PDTLLLIEAPKLDKRKKLTKWLKALKNAQIVECKTPKEQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELE  155 (302)
T ss_pred             CCEEEEEecCCCCHhHHHHHHHHHhcCeeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHH
Confidence            9999888887543   2223344  4999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhh--CCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc---------
Q 020071          215 ATYS--GFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY---------  283 (331)
Q Consensus       215 ~~~~--~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~---------  283 (331)
                      +++.  +.+.||.++|..++....+..++++++++..++...++..++.|...|++|..|+..+.+.++.+         
T Consensus       156 KL~~~~~~~~It~e~I~~~~~~~~~~~if~l~dal~~~~~~~a~~~l~~l~~~~~~~~~il~~l~~~~~~L~~~k~~~~~  235 (302)
T TIGR01128       156 KLALYAPDGKITLEDVEEAVSDSARFNVFDLTDALLEGKAARALRILKGLLGEGEEPLILLALLQRQLRLLLQLKRLAQQ  235 (302)
T ss_pred             HHHhhCCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            9863  34579999999999988888999999999999999999999999999999999998877644431         


Q ss_pred             -----------ccC---------------hHhHHHHHHHHHHHHHHHhc--CCCchHHHHHHHHHHH
Q 020071          284 -----------EMA---------------EHLKLEFMKEAGFAHMRICD--GVGSYLQLCGLLAKLS  322 (331)
Q Consensus       284 -----------~~~---------------~~~~~~~~~~l~~~~~~l~~--~~~~~l~l~~l~~~l~  322 (331)
                                 +++               ...+..++..+.+++..++.  +.++.+.||.++.++|
T Consensus       236 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~s~~~L~~~l~~l~~~d~~~K~~~~~~~~~~le~~i~~~~  302 (302)
T TIGR01128       236 GGPLAQLASKLGIWPYRRKLALKALRRLSLAKLEQALQELAEADLQLKGTGGGDPWLALERLLLKLA  302 (302)
T ss_pred             CCCHHHHHHHcCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCcCCCCHHHHHHHHHHHhC
Confidence                       111               22235889999999999993  6699999999999986

subunit around DNA forming a DNA sliding clamp.

>PRK05574 holA DNA polymerase III subunit delta; Reviewed

Probab=99.90  E-value=7.6e-21  Score=171.01  Aligned_cols=281  Identities=14%  Similarity=0.127  Sum_probs=219.5

Q ss_pred             HHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCC-CCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCc
Q 020071           35 ARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGP-NYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKH  112 (331)
Q Consensus        35 ~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~  112 (331)
                      ..+.+.++++ +++ ++|||+.-.-+...+..+.+.+..+ ....++..+++.+.    .+.+.+..+.+.++   ++++
T Consensus         6 ~~~~~~~~~~-~~~~~li~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~d~~~~----~~~~l~~~~~t~~l---F~~~   77 (340)
T PRK05574          6 EQLEKQLKKG-LAPLYLLYGDEPLLLQEAKDAIRAAARAQGFDERNVFTFDGSET----DWDDVLEACQSLPL---FSDR   77 (340)
T ss_pred             HHHHHHHhCC-CCceEEEEcCcHHHHHHHHHHHHHHHHcCCCceeeEEEeecCCC----CHHHHHHHhhccCc---cccC
Confidence            3455667666 555 7999999777777777777765332 23445566665544    36667777777777   7899


Q ss_pred             eEEEEeCCCCCCHHH----HHHHHHHHHHhcC--CcEEEEeeCCC---CCC---ChhhhcccceeeecCCCHHHHHHHHH
Q 020071          113 KVVVLDEADSMTAGA----QQALRRTMEIYSN--STRFALACNVS---SKI---IEPIQSRCAIVRFSRLSDEEILSRLM  180 (331)
Q Consensus       113 ~vviide~d~l~~~~----~~~Ll~~le~~~~--~~~~I~~~~~~---~~l---~~~l~sr~~~i~~~~~~~~~~~~~l~  180 (331)
                      ++|+|++++.+....    ...|..++ +|++  ..++++.++..   .++   .+++.+++.++.|.+++..++..|+.
T Consensus        78 klvii~~~~~l~~~~~~~~l~~l~~~l-~~~~~~~~~li~~~~~~~~~~k~~k~~k~~~~~~~~~~~~~~~~~~~~~~i~  156 (340)
T PRK05574         78 KLVELRLPEFLTGAKGEKALKRLEAYL-NPLPHPDLLLIVRLPKLDKAKKKSAWFKALKKKAVVVEAQPPKEAELPQWIQ  156 (340)
T ss_pred             eEEEEECCCCCCchhHHHHHHHHHHhc-cCCCCCcEEEEEECCcCCHHHHhhHHHHHHHhCceEEEcCCCCHHHHHHHHH
Confidence            999999999986542    33444444 4444  34455554432   233   67888899999999999999999999


Q ss_pred             HHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh--CCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHH
Q 020071          181 VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS--GFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSG  258 (331)
Q Consensus       181 ~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~--~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~  258 (331)
                      ..+++.|+.++++++++|++.++||++.+.+++++++.  +.+.||.++|.+++....+..++++++++..++...++..
T Consensus       157 ~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~~It~~~I~~~i~~~~~~~~f~l~dai~~~~~~~a~~~  236 (340)
T PRK05574        157 QRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEEAVPDSARFDVFDLVDAILAGKIKRALRI  236 (340)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHH
Confidence            99999999999999999999999999999999999863  2334999999999999888999999999999999999999


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHHh--------------------ccc---------------ChHhHHHHHHHHHHHHHH
Q 020071          259 LKQLYDLGYSPTDIITTLFRIIKN--------------------YEM---------------AEHLKLEFMKEAGFAHMR  303 (331)
Q Consensus       259 l~~l~~~g~~~~~i~~~l~~~~~~--------------------~~~---------------~~~~~~~~~~~l~~~~~~  303 (331)
                      +..|...|.++..|+..+.+.++.                    +++               +...+.+++..+.+++.+
T Consensus       237 l~~l~~~~~~~~~il~~l~~~~~~l~~~k~~~~~g~~~~~~~~~~~i~~~~~~~~~~~~~~~s~~~L~~~l~~L~~~d~~  316 (340)
T PRK05574        237 LDGLRLEGEEPIKLLAALQREFRLLLQLKILSQQGYPLQQLAKELRVWPYRVKLALRALQRLSLKQLKQAIQLLAETDYQ  316 (340)
T ss_pred             HHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHcCCChhHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence            999999999999999887664432                    112               222235899999999999


Q ss_pred             HhcC--CCchHHHHHHHHHHHHH
Q 020071          304 ICDG--VGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       304 l~~~--~~~~l~l~~l~~~l~~~  324 (331)
                      ++++  .++.+.||.+++++|+.
T Consensus       317 iK~~~~~~~~~~le~~ii~l~~~  339 (340)
T PRK05574        317 IKTGYGGDKWLELELLLLKLAGA  339 (340)
T ss_pred             HhCCCCCCHHHHHHHHHHHhccC
Confidence            9988  59999999999999864

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.90  E-value=5.3e-22  Score=168.18  Aligned_cols=209  Identities=16%  Similarity=0.121  Sum_probs=153.9

Q ss_pred             CCCchhhhcCCC-CCCccc--cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           11 YDIPWVEKYRPT-KVCDIV--GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        11 ~~~~~~~~~~p~-~~~~~i--g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      .++|+.-.++|. +|++++  ++..++..+.++......++++||||+|+|||++++++++.+...+....|+.++....
T Consensus         7 ~Ql~l~~~~~~~~~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~   86 (235)
T PRK08084          7 AQLSLPLYLPDDETFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW   86 (235)
T ss_pred             cceecCCCCCCcCCccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh
Confidence            467777666654 788887  46778888888887666667999999999999999999998754433333333332111


Q ss_pred             CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHHHHhc--CCcEEEEeeCCC-C---CCChhhh
Q 020071           88 RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTMEIYS--NSTRFALACNVS-S---KIIEPIQ  159 (331)
Q Consensus        88 ~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~le~~~--~~~~~I~~~~~~-~---~l~~~l~  159 (331)
                          ...+.++.+.         ...+++|||++.+..  ..+..|..++....  .+..+|++++.+ .   .+.+.++
T Consensus        87 ----~~~~~~~~~~---------~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~  153 (235)
T PRK08084         87 ----FVPEVLEGME---------QLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLA  153 (235)
T ss_pred             ----hhHHHHHHhh---------hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHH
Confidence                1112222211         235899999999863  44556666665432  235678877654 2   3579999


Q ss_pred             ccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhc
Q 020071          160 SRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVC  232 (331)
Q Consensus       160 sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~  232 (331)
                      ||+   .++.+.||+.++..+++++++...|+.++++++++|++.++||+|.+.+.++.+.    ...+.||.+.+++++
T Consensus       154 SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~k~~l  233 (235)
T PRK08084        154 SRLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDREMRTLFMTLDQLDRASITAQRKLTIPFVKEIL  233 (235)
T ss_pred             HHHhCCceeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence            998   8999999999999999999898899999999999999999999999999998763    245678888777654

>PRK06893 DNA replication initiation factor; Validated

Probab=99.88  E-value=2.8e-21  Score=163.23  Aligned_cols=209  Identities=15%  Similarity=0.138  Sum_probs=147.0

Q ss_pred             CCCchhhhcC-CCCCCccccCHHHH--HHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           11 YDIPWVEKYR-PTKVCDIVGNLDAV--ARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        11 ~~~~~~~~~~-p~~~~~~ig~~~~~--~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      |++|+.-.++ +.+|+++++++...  ..+.+.......|.++||||+|+|||++++++++++...+....|+..+....
T Consensus         1 ~Ql~l~~~~~~~~~fd~f~~~~~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~   80 (229)
T PRK06893          1 MQLPLPIHQIDDETLDNFYADNNLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQY   80 (229)
T ss_pred             CCcccCCCCCCcccccccccCChHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhh
Confidence            5667777666 45999999765543  23333333444455899999999999999999998755433333444332111


Q ss_pred             CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC--HHHHHHHHHHHHHhcC--CcEEEEeeCCC-C---CCChhhh
Q 020071           88 RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT--AGAQQALRRTMEIYSN--STRFALACNVS-S---KIIEPIQ  159 (331)
Q Consensus        88 ~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~--~~~~~~Ll~~le~~~~--~~~~I~~~~~~-~---~l~~~l~  159 (331)
                      .    ..+.++.         ..+..+++|||++.+.  ...+..|..+++....  ..++|++++.. .   ...+.++
T Consensus        81 ~----~~~~~~~---------~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~  147 (229)
T PRK06893         81 F----SPAVLEN---------LEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLA  147 (229)
T ss_pred             h----hHHHHhh---------cccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHH
Confidence            1    1112211         1235799999999875  3345577777765432  23445666553 2   3458999


Q ss_pred             cccc---eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhc
Q 020071          160 SRCA---IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVC  232 (331)
Q Consensus       160 sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~  232 (331)
                      ||+.   ++.+.+|+.++..+++++.+...++.++++++++|++.++||+|.+.+.++.+.    ...+.||.+.+++++
T Consensus       148 sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l~l~~~v~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~v~~~L  227 (229)
T PRK06893        148 SRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGIELSDEVANFLLKRLDRDMHTLFDALDLLDKASLQAQRKLTIPFVKEIL  227 (229)
T ss_pred             HHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHh
Confidence            9975   889999999999999999999999999999999999999999999999998663    224568887777654

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.88  E-value=2.2e-21  Score=182.76  Aligned_cols=207  Identities=19%  Similarity=0.269  Sum_probs=141.2

Q ss_pred             CCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-----EEEeCCCCccHHHHHHHHHHHhcCCC--CCCceEE
Q 020071            9 SAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-----LILAGPPGTGKTTSILALAHELLGPN--YREAVME   81 (331)
Q Consensus         9 ~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-----~ll~G~~G~GKt~la~~l~~~l~~~~--~~~~~~~   81 (331)
                      .+...||.+||||..+++++||++.+..+..++.....++     ++|+||+|+|||++++.+++.+....  |..++-.
T Consensus        68 ~~~~~pW~eKyrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~  147 (637)
T TIGR00602        68 LDGNEPWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLP  147 (637)
T ss_pred             ccccCchHHHhCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhh
Confidence            4566799999999999999999999999999998765433     79999999999999999999874321  0000000


Q ss_pred             eecCC---------------CCChHhHHHHHHHHHhcc-c--CCCCCCceEEEEeCCCCCCHH---HHHHHHH--HHHHh
Q 020071           82 LNASD---------------DRGIDVVRNKIKMFAQKK-V--TLPPGKHKVVVLDEADSMTAG---AQQALRR--TMEIY  138 (331)
Q Consensus        82 ~~~~~---------------~~~~~~i~~~i~~~~~~~-~--~~~~~~~~vviide~d~l~~~---~~~~Ll~--~le~~  138 (331)
                      .....               ....+.+.+.+..+.... .  ....++++||+|||++.+...   .+..++.  +.+  
T Consensus       148 ~~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e--  225 (637)
T TIGR00602       148 DFQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYVS--  225 (637)
T ss_pred             cccccccccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhhHHHHHHHHHHHhhc--
Confidence            00000               112334444444433110 0  001346789999999766432   2333333  222  


Q ss_pred             cCCcEEEEeeCCC-C--------------CCChhhhc--ccceeeecCCCHHHHHHHHHHHHHhcCCC------C-CHHH
Q 020071          139 SNSTRFALACNVS-S--------------KIIEPIQS--RCAIVRFSRLSDEEILSRLMVVVQEEKVP------Y-VPEG  194 (331)
Q Consensus       139 ~~~~~~I~~~~~~-~--------------~l~~~l~s--r~~~i~~~~~~~~~~~~~l~~~~~~~~~~------i-~~~~  194 (331)
                      ...+.+|+++++. .              .+.+.+++  |+.++.|.|++..++.+.|.+++..++..      + ++++
T Consensus       226 ~~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~  305 (637)
T TIGR00602       226 IGRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTS  305 (637)
T ss_pred             CCCceEEEEecCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHH
Confidence            2356677766531 1              13368887  56779999999999999999999876432      2 4678


Q ss_pred             HHHHHHhcCCCHHHHHHHHHHHh
Q 020071          195 LEAIIFTADGDMRQALNNLQATY  217 (331)
Q Consensus       195 ~~~l~~~~~g~~r~~~~~l~~~~  217 (331)
                      +..|+..++||+|.|++.|+.++
T Consensus       306 l~~I~~~s~GDiRsAIn~LQf~~  328 (637)
T TIGR00602       306 VELLCQGCSGDIRSAINSLQFSS  328 (637)
T ss_pred             HHHHHHhCCChHHHHHHHHHHHH
Confidence            99999999999999999999875

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

>PRK08727 hypothetical protein; Validated

Probab=99.88  E-value=9e-21  Score=160.48  Aligned_cols=209  Identities=17%  Similarity=0.208  Sum_probs=150.3

Q ss_pred             CCchhhhcCCC-CCCccccC-HHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC
Q 020071           12 DIPWVEKYRPT-KVCDIVGN-LDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG   89 (331)
Q Consensus        12 ~~~~~~~~~p~-~~~~~ig~-~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (331)
                      ++|+.-.++|. +|+++++. ......+.....+.....++|+||+|+|||+++.+++..+...+.  .+..++..+.  
T Consensus         5 Ql~l~~~~~~~~~f~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~--~~~y~~~~~~--   80 (233)
T PRK08727          5 QLPLALRYPSDQRFDSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQAGR--SSAYLPLQAA--   80 (233)
T ss_pred             CccccCCCCCcCChhhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--cEEEEeHHHh--
Confidence            77888888765 89998754 444445544443333334899999999999999999998754433  3344443221  


Q ss_pred             hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC--HHHHHHHHHHHHHhc-CCcEEEEeeCCC-C---CCChhhhcc-
Q 020071           90 IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT--AGAQQALRRTMEIYS-NSTRFALACNVS-S---KIIEPIQSR-  161 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~--~~~~~~Ll~~le~~~-~~~~~I~~~~~~-~---~l~~~l~sr-  161 (331)
                      ...+.+.++.+         ....+++|||++.+.  ...+..+..++.... ....+|++++.. .   .+.+.++|| 
T Consensus        81 ~~~~~~~~~~l---------~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl  151 (233)
T PRK08727         81 AGRLRDALEAL---------EGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRL  151 (233)
T ss_pred             hhhHHHHHHHH---------hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHH
Confidence            11222232221         234599999999885  345667777776532 345688888764 3   357999999 


Q ss_pred             --cceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhcC
Q 020071          162 --CAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVCD  233 (331)
Q Consensus       162 --~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~~  233 (331)
                        |.++.|+||+.+++..++++++...++.++++++++|++.++||+|.+++.++.+.    ...+.||.+.+++++.
T Consensus       152 ~~~~~~~l~~~~~e~~~~iL~~~a~~~~l~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~~it~~~~~~~l~  229 (233)
T PRK08727        152 AQCIRIGLPVLDDVARAAVLRERAQRRGLALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKRRVTVPFLRRVLE  229 (233)
T ss_pred             hcCceEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHh
Confidence              88999999999999999999999999999999999999999999999988887653    2345677777766543

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

Probab=99.88  E-value=2.2e-21  Score=158.58  Aligned_cols=202  Identities=22%  Similarity=0.247  Sum_probs=151.6

Q ss_pred             hhcCCCCCCccccCHHHHHH---HHHHHHc------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           17 EKYRPTKVCDIVGNLDAVAR---LGIIARD------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        17 ~~~~p~~~~~~ig~~~~~~~---l~~~l~~------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      +-.+..+|+|++||++++..   +.+.+++      +.+.++|||||||+|||.+|++++.+.     ..+++.+++...
T Consensus       113 e~~~~it~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~-----kvp~l~vkat~l  187 (368)
T COG1223         113 EIISDITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA-----KVPLLLVKATEL  187 (368)
T ss_pred             hhhccccHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc-----CCceEEechHHH
Confidence            44556689999999999974   4555554      455669999999999999999999998     788888887765


Q ss_pred             CCh------HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC------------HHHHHHHHHHHHHh--cCCcEEEEe
Q 020071           88 RGI------DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT------------AGAQQALRRTMEIY--SNSTRFALA  147 (331)
Q Consensus        88 ~~~------~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~------------~~~~~~Ll~~le~~--~~~~~~I~~  147 (331)
                      .|.      .++++....+.+.       -+.|+||||+|.+.            .+..|+|+.-|+..  ...++.|.+
T Consensus       188 iGehVGdgar~Ihely~rA~~~-------aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaa  260 (368)
T COG1223         188 IGEHVGDGARRIHELYERARKA-------APCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAA  260 (368)
T ss_pred             HHHHhhhHHHHHHHHHHHHHhc-------CCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEee
Confidence            432      3455554444433       36799999999774            24578888877743  357888999


Q ss_pred             eCCCCCCChhhhcccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHH------HHhhC
Q 020071          148 CNVSSKIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQ------ATYSG  219 (331)
Q Consensus       148 ~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~------~~~~~  219 (331)
                      ||++..+.++++||+. .++|.-|+++|...+++..+++..++++-. .++++..++| +-|.+..-+-      .++.+
T Consensus       261 TN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~-~~~~~~~t~g~SgRdikekvlK~aLh~Ai~ed  339 (368)
T COG1223         261 TNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDAD-LRYLAAKTKGMSGRDIKEKVLKTALHRAIAED  339 (368)
T ss_pred             cCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccC-HHHHHHHhCCCCchhHHHHHHHHHHHHHHHhc
Confidence            9999999999999985 589999999999999999999888777665 7888888866 4555444332      22345


Q ss_pred             CCccchhhhhhh
Q 020071          220 FRFVNQENVFKV  231 (331)
Q Consensus       220 ~~~i~~~~v~~~  231 (331)
                      ...|+.+++..+
T Consensus       340 ~e~v~~edie~a  351 (368)
T COG1223         340 REKVEREDIEKA  351 (368)
T ss_pred             hhhhhHHHHHHH
Confidence            555666655543

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.87  E-value=9e-20  Score=172.47  Aligned_cols=259  Identities=14%  Similarity=0.132  Sum_probs=173.9

Q ss_pred             hhhcCCCCCCccccCHHHHHHHHHHHHc----CCCCe-EEEeCCCCccHHHHHHHHHHHhcCC----C-CCCceEEeecC
Q 020071           16 VEKYRPTKVCDIVGNLDAVARLGIIARD----GNMPN-LILAGPPGTGKTTSILALAHELLGP----N-YREAVMELNAS   85 (331)
Q Consensus        16 ~~~~~p~~~~~~ig~~~~~~~l~~~l~~----~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~----~-~~~~~~~~~~~   85 (331)
                      ...|.|   +.+.|++..+..|...+..    ....+ ++++|+||+|||++++.+.+.+...    . ....++++||.
T Consensus       749 ~~DYVP---D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm  825 (1164)
T PTZ00112        749 QLDVVP---KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM  825 (1164)
T ss_pred             CcccCC---CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC
Confidence            344555   5688999999877766653    33334 4799999999999999999887421    1 23567899986


Q ss_pred             CCCChHhHHHHH-------------------HHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc---CCcE
Q 020071           86 DDRGIDVVRNKI-------------------KMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS---NSTR  143 (331)
Q Consensus        86 ~~~~~~~i~~~i-------------------~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~---~~~~  143 (331)
                      .......+...+                   ..+..... .......||||||+|.|....++.|+.+++.+.   ..+.
T Consensus       826 ~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~-k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLi  904 (1164)
T PTZ00112        826 NVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNK-KDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLV  904 (1164)
T ss_pred             ccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhh-cccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEE
Confidence            543333222211                   11111100 001224599999999998777888888877543   3566


Q ss_pred             EEEeeCC---CCCCChhhhcccce--eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHH---hcCCCHHHHHHHHHH
Q 020071          144 FALACNV---SSKIIEPIQSRCAI--VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIF---TADGDMRQALNNLQA  215 (331)
Q Consensus       144 ~I~~~~~---~~~l~~~l~sr~~~--i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~---~~~g~~r~~~~~l~~  215 (331)
                      +|+++|.   +..+.+.++||+..  +.|+|++.+++.++|..++......+++++++++++   ..+||.|.|+++|+.
T Consensus       905 LIGISNdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRr  984 (1164)
T PTZ00112        905 LIAISNTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRK  984 (1164)
T ss_pred             EEEecCchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHH
Confidence            7777876   45677899999754  899999999999999999886544689999999998   668999999999987


Q ss_pred             Hh--hCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHH--HHHHHHHHHHc----CCCHHHHHHHHHHHHH
Q 020071          216 TY--SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDD--ACSGLKQLYDL----GYSPTDIITTLFRIIK  281 (331)
Q Consensus       216 ~~--~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~--~~~~l~~l~~~----g~~~~~i~~~l~~~~~  281 (331)
                      +.  .....|+.++|.++........+.+.+   ......+  ++..+..+...    .....+|+..+..+|+
T Consensus       985 AgEikegskVT~eHVrkAleeiE~srI~e~I---ktLPlHqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce 1055 (1164)
T PTZ00112        985 AFENKRGQKIVPRDITEATNQLFDSPLTNAI---NYLPWPFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVE 1055 (1164)
T ss_pred             HHhhcCCCccCHHHHHHHHHHHHhhhHHHHH---HcCCHHHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHH
Confidence            75  234578888888876554333333333   3333333  22212222222    2567778888888887

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.87  E-value=1e-19  Score=165.27  Aligned_cols=278  Identities=15%  Similarity=0.132  Sum_probs=176.7

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHc----CCCCeEEEeCCCCccHHHHHHHHHHHhcCCC----CCCceEEeecC
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARD----GNMPNLILAGPPGTGKTTSILALAHELLGPN----YREAVMELNAS   85 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~   85 (331)
                      .+...|.|.   +++|++..++.|...+..    +..++++++||+|+|||++++.+++.+....    ....++.+++.
T Consensus         7 ~l~~~~~p~---~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~   83 (365)
T TIGR02928         7 LLEPDYVPD---RIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQ   83 (365)
T ss_pred             hCCCCCCCC---CCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECC
Confidence            456778885   679999999988888764    3444599999999999999999998874321    12567788876


Q ss_pred             CCCChH-hHHHHHHHHHh--c--cc-------------C-C-CCCCceEEEEeCCCCCCHHH---HHHHHHH--HHHhc-
Q 020071           86 DDRGID-VVRNKIKMFAQ--K--KV-------------T-L-PPGKHKVVVLDEADSMTAGA---QQALRRT--MEIYS-  139 (331)
Q Consensus        86 ~~~~~~-~i~~~i~~~~~--~--~~-------------~-~-~~~~~~vviide~d~l~~~~---~~~Ll~~--le~~~-  139 (331)
                      ...+.. .+..+......  .  +.             . + ..++..+|+|||+|.+....   ...|.++  ..+.+ 
T Consensus        84 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~  163 (365)
T TIGR02928        84 ILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDN  163 (365)
T ss_pred             CCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCC
Confidence            543322 22222222210  0  00             0 0 02345789999999995322   3334443  12222 


Q ss_pred             CCcEEEEeeCCCC---CCChhhhccc--ceeeecCCCHHHHHHHHHHHHHh--cCCCCCHHHHHHHHH---hcCCCHHHH
Q 020071          140 NSTRFALACNVSS---KIIEPIQSRC--AIVRFSRLSDEEILSRLMVVVQE--EKVPYVPEGLEAIIF---TADGDMRQA  209 (331)
Q Consensus       140 ~~~~~I~~~~~~~---~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~---~~~g~~r~~  209 (331)
                      .++.+|+++|.+.   .+.+.+.+|+  ..+.|+|++.+++.++++.++..  .+..+++++++.++.   .++||+|.+
T Consensus       164 ~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~a  243 (365)
T TIGR02928       164 AKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKA  243 (365)
T ss_pred             CeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHH
Confidence            5678889998764   5778888887  46899999999999999998863  233478887776554   557999999


Q ss_pred             HHHHHHHh-----hCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHH--HHHHHHHHHHcC---CCHHHHHHHHHHH
Q 020071          210 LNNLQATY-----SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDD--ACSGLKQLYDLG---YSPTDIITTLFRI  279 (331)
Q Consensus       210 ~~~l~~~~-----~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~--~~~~l~~l~~~g---~~~~~i~~~l~~~  279 (331)
                      ++.++.+.     .+...|+.+++.++........   ..+.+..-+..+  .+..+..+...+   ....+++..+..+
T Consensus       244 l~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~~~~---~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~  320 (365)
T TIGR02928       244 IDLLRVAGEIAEREGAERVTEDHVEKAQEKIEKDR---LLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEV  320 (365)
T ss_pred             HHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH---HHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHH
Confidence            99997653     2445799999987665543222   233343334433  344454444423   3556666666667


Q ss_pred             HHhcccChHhHHHHHHHH
Q 020071          280 IKNYEMAEHLKLEFMKEA  297 (331)
Q Consensus       280 ~~~~~~~~~~~~~~~~~l  297 (331)
                      ++..++.+....++...+
T Consensus       321 ~~~~~~~~~~~~~~~~~l  338 (365)
T TIGR02928       321 CEDIGVDPLTQRRISDLL  338 (365)
T ss_pred             HHhcCCCCCcHHHHHHHH
Confidence            776664443333333333

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.

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=99.87  E-value=5.8e-20  Score=150.19  Aligned_cols=177  Identities=14%  Similarity=0.104  Sum_probs=147.3

Q ss_pred             HHHHHHHHHcCCCCe-EEEeCCCC-ccHHHHHHHHHHHhcCCC----CCCceEEeecC-------CCCChHhHHHHHHHH
Q 020071           34 VARLGIIARDGNMPN-LILAGPPG-TGKTTSILALAHELLGPN----YREAVMELNAS-------DDRGIDVVRNKIKMF  100 (331)
Q Consensus        34 ~~~l~~~l~~~~~~~-~ll~G~~G-~GKt~la~~l~~~l~~~~----~~~~~~~~~~~-------~~~~~~~i~~~i~~~  100 (331)
                      +..+.+.++.+++.| +||.|..+ +||..++..+++.+.|.+    ...++..+.+.       ...+++++|+..+..
T Consensus         2 ~~~L~~~iq~~kLshAYLfeG~n~~~~~~~~~~f~~~~l~~~~i~~~~HPD~~~I~pe~~~~~~~~~I~IdqIReL~~~l   81 (263)
T PRK06581          2 IERLEFNLKHNKLYNSWLIEAENIEQALKDLEKFIYIKLFKNSIPLENNPDYHFIARETSATSNAKNISIEQIRKLQDFL   81 (263)
T ss_pred             hHHHHHHHHcCcchheeeEeCCChhhHHHHHHHHHHHHHhccCcccCCCCCEEEEeccccccccCCcccHHHHHHHHHHH
Confidence            467889999999999 79999997 999999999999998853    23456666533       346889999999888


Q ss_pred             HhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHH
Q 020071          101 AQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLM  180 (331)
Q Consensus       101 ~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~  180 (331)
                      ...+.   .+++||+||+++|.|+.+++|+|++++||||+++.||++|+++..+++|++|||+.+.|..+......++..
T Consensus        82 ~~~p~---~g~~KViII~~ae~mt~~AANALLKtLEEPP~~t~fILit~~~~~LLpTIrSRCq~i~~~~p~~~~~~e~~~  158 (263)
T PRK06581         82 SKTSA---ISGYKVAIIYSAELMNLNAANSCLKILEDAPKNSYIFLITSRAASIISTIRSRCFKINVRSSILHAYNELYS  158 (263)
T ss_pred             hhCcc---cCCcEEEEEechHHhCHHHHHHHHHhhcCCCCCeEEEEEeCChhhCchhHhhceEEEeCCCCCHHHHHHHHH
Confidence            88876   789999999999999999999999999999999999999999999999999999999999999988888776


Q ss_pred             HHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 020071          181 VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       181 ~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~  216 (331)
                      ..+..   ..+...++.|.+...-|........+.+
T Consensus       159 ~~~~p---~~~~~~l~~i~~~~~~d~~~w~~~~~~~  191 (263)
T PRK06581        159 QFIQP---IADNKTLDFINRFTTKDRELWLDFIDNL  191 (263)
T ss_pred             Hhccc---ccccHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            64322   2345557888888776766666655544

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.86  E-value=3.5e-19  Score=163.35  Aligned_cols=274  Identities=18%  Similarity=0.190  Sum_probs=180.7

Q ss_pred             CccccCHHHHHHHHHHHHc----CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHh-HHHHHHH
Q 020071           25 CDIVGNLDAVARLGIIARD----GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDV-VRNKIKM   99 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-i~~~i~~   99 (331)
                      +.++|++..++.+...+..    +..++++++||+|+|||++++.+++.+........++.+++....+... +.+....
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~  109 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQ  109 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHH
Confidence            4588999999888777643    3445689999999999999999999886544456678888765432211 1111111


Q ss_pred             HHhccc--C---------------CCCCCceEEEEeCCCCCC----HHHHHHHHHHHHHhcC-CcEEEEeeCCC---CCC
Q 020071          100 FAQKKV--T---------------LPPGKHKVVVLDEADSMT----AGAQQALRRTMEIYSN-STRFALACNVS---SKI  154 (331)
Q Consensus       100 ~~~~~~--~---------------~~~~~~~vviide~d~l~----~~~~~~Ll~~le~~~~-~~~~I~~~~~~---~~l  154 (331)
                      ......  .               ...+.+.+|+|||+|.+.    .+....|++.++..+. ++.+|+++++.   ..+
T Consensus       110 l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~~~~~l  189 (394)
T PRK00411        110 LFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTFLYIL  189 (394)
T ss_pred             hcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcchhhhc
Confidence            111000  0               002345799999999986    3345555565554333 56788888875   356


Q ss_pred             Chhhhccc--ceeeecCCCHHHHHHHHHHHHHhc--CCCCCHHHHHHHHHhc---CCCHHHHHHHHHHHh-----hCCCc
Q 020071          155 IEPIQSRC--AIVRFSRLSDEEILSRLMVVVQEE--KVPYVPEGLEAIIFTA---DGDMRQALNNLQATY-----SGFRF  222 (331)
Q Consensus       155 ~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~i~~~~~~~l~~~~---~g~~r~~~~~l~~~~-----~~~~~  222 (331)
                      .+.+++|+  ..+.|+|++.+++.++++.++...  ...+++++++.+++.+   .||+|.+++.+..+.     .+...
T Consensus       190 ~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~  269 (394)
T PRK00411        190 DPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRK  269 (394)
T ss_pred             CHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCC
Confidence            67788876  568999999999999999988643  3358999999999887   899999999997542     34567


Q ss_pred             cchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHhcccCh---HhHHHHHHH
Q 020071          223 VNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYD---LGYSPTDIITTLFRIIKNYEMAE---HLKLEFMKE  296 (331)
Q Consensus       223 i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~---~g~~~~~i~~~l~~~~~~~~~~~---~~~~~~~~~  296 (331)
                      |+.+++.++........+...+..+.. .....+..+..+..   ...+..+++..+..+++..++++   ....+++..
T Consensus       270 I~~~~v~~a~~~~~~~~~~~~~~~L~~-~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~~~~~~~~~~l~~  348 (394)
T PRK00411        270 VTEEDVRKAYEKSEIVHLSEVLRTLPL-HEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEPRTHTRFYEYINK  348 (394)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCcCcHHHHHHHHHH
Confidence            999999887665433333333333311 12223333333333   23578888888888888877644   455555555


Q ss_pred             HHH
Q 020071          297 AGF  299 (331)
Q Consensus       297 l~~  299 (331)
                      +.+
T Consensus       349 L~~  351 (394)
T PRK00411        349 LDM  351 (394)
T ss_pred             HHh
Confidence            553

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.86  E-value=5.4e-20  Score=155.84  Aligned_cols=206  Identities=17%  Similarity=0.157  Sum_probs=152.8

Q ss_pred             CCchhhhcC-CCCCCccc--cCHHHHHHHHHHHHcC-CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           12 DIPWVEKYR-PTKVCDIV--GNLDAVARLGIIARDG-NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        12 ~~~~~~~~~-p~~~~~~i--g~~~~~~~l~~~l~~~-~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      ++++.-.++ |.+|++++  ++..++..+..+.... ...+++|+||+|+|||++++++++.....  +..++.+++...
T Consensus         4 ql~~~~~~~~~~~~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~--~~~~~~i~~~~~   81 (227)
T PRK08903          4 QLTLDLGPPPPPTFDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYG--GRNARYLDAASP   81 (227)
T ss_pred             ccccCCCCCChhhhcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCcEEEEehHHh
Confidence            344444333 56899988  3567777888877643 33349999999999999999999987544  334555555432


Q ss_pred             CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCC--cEEEEeeCCC---CCCChhhhccc
Q 020071           88 RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNS--TRFALACNVS---SKIIEPIQSRC  162 (331)
Q Consensus        88 ~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~--~~~I~~~~~~---~~l~~~l~sr~  162 (331)
                      .      +.+      .+   .....+++|||+|.++...+..|..+++....+  ..+|++++..   ..+.+.+.||+
T Consensus        82 ~------~~~------~~---~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~  146 (227)
T PRK08903         82 L------LAF------DF---DPEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRL  146 (227)
T ss_pred             H------HHH------hh---cccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHH
Confidence            1      111      11   234679999999999988899999999764432  2355555432   23567788885


Q ss_pred             ---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhcCC
Q 020071          163 ---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVCDQ  234 (331)
Q Consensus       163 ---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~~~  234 (331)
                         ..+.++|++.++...++.+.+.+.++.++++++++|++...||++.+.+.++.+.    ...+.||...+.++++.
T Consensus       147 ~~~~~i~l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~~~i~~~~~~~~l~~  225 (227)
T PRK08903        147 GWGLVYELKPLSDADKIAALKAAAAERGLQLADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQKRPVTLPLLREMLAQ  225 (227)
T ss_pred             hcCeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhc
Confidence               7899999999999999999888899999999999999999999999999988763    45577898888877654

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.86  E-value=2.3e-20  Score=161.09  Aligned_cols=189  Identities=22%  Similarity=0.225  Sum_probs=136.7

Q ss_pred             CCCccccCHHHHHHHHHHHH----------c-----CCCCeEEEeCCCCccHHHHHHHHHHHhcCCC--CCCceEEeecC
Q 020071           23 KVCDIVGNLDAVARLGIIAR----------D-----GNMPNLILAGPPGTGKTTSILALAHELLGPN--YREAVMELNAS   85 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~----------~-----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~--~~~~~~~~~~~   85 (331)
                      .+++++|.+.+++.+.....          .     +..+|++|+||||+|||++|+.+++.+...+  ....++++++.
T Consensus         4 ~l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~   83 (261)
T TIGR02881         4 ELSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA   83 (261)
T ss_pred             HHHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH
Confidence            35689999999987764422          1     2345689999999999999999999874322  22356666654


Q ss_pred             CCCCh--HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC--------HHHHHHHHHHHHHhcCCcEEEEeeCCC----
Q 020071           86 DDRGI--DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT--------AGAQQALRRTMEIYSNSTRFALACNVS----  151 (331)
Q Consensus        86 ~~~~~--~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~--------~~~~~~Ll~~le~~~~~~~~I~~~~~~----  151 (331)
                      +..+.  ......+......      ....|+||||+|.+.        .+.++.|++.+++...++++|+++...    
T Consensus        84 ~l~~~~~g~~~~~~~~~~~~------a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~  157 (261)
T TIGR02881        84 DLVGEYIGHTAQKTREVIKK------ALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDY  157 (261)
T ss_pred             HhhhhhccchHHHHHHHHHh------ccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHH
Confidence            43221  0111111222211      224699999999875        456788999999887777777775432    


Q ss_pred             -CCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh----------cCCCHHHHHHHHHHHh
Q 020071          152 -SKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFT----------ADGDMRQALNNLQATY  217 (331)
Q Consensus       152 -~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~----------~~g~~r~~~~~l~~~~  217 (331)
                       ..+.|.+++|+ ..+.|++++.+++.+++++.+...+..++++++..+++.          +.||.|.+.|.++.+.
T Consensus       158 ~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n~~e~a~  235 (261)
T TIGR02881       158 FLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRNIIEKAI  235 (261)
T ss_pred             HHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHHHHHHHH
Confidence             24678999998 568999999999999999999998889999998888543          3589999999998754

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.85  E-value=1.3e-19  Score=172.66  Aligned_cols=222  Identities=23%  Similarity=0.243  Sum_probs=162.6

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEEeecCCCC
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVMELNASDDR   88 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~~~   88 (331)
                      |..+.+||.+|++++|++..+..+.+.+.....++++|+||+|+|||++|+.+++......     ...+++.+++....
T Consensus       143 ~~~~~~rp~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~  222 (615)
T TIGR02903       143 SAQSLLRPRAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLR  222 (615)
T ss_pred             HHhhhcCcCcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhcc
Confidence            5677899999999999999999998888877777799999999999999999987663211     23567888875431


Q ss_pred             C-hHhHHH------------HH-HHHHhccc------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc---------
Q 020071           89 G-IDVVRN------------KI-KMFAQKKV------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS---------  139 (331)
Q Consensus        89 ~-~~~i~~------------~i-~~~~~~~~------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~---------  139 (331)
                      . ...+..            .. ........      .+.....+++||||++.|+...++.|++++++..         
T Consensus       223 ~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~  302 (615)
T TIGR02903       223 WDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYD  302 (615)
T ss_pred             CCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceec
Confidence            0 111100            00 00000000      0012245799999999999999999999998521         


Q ss_pred             -------------------CCcEEEEee-CCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 020071          140 -------------------NSTRFALAC-NVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAII  199 (331)
Q Consensus       140 -------------------~~~~~I~~~-~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~  199 (331)
                                         ..+++|.++ +++..+.+++++||..+.|.|++.+++..++++.+.+.++.+++++++.|+
T Consensus       303 ~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~ls~eal~~L~  382 (615)
T TIGR02903       303 PDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHLAAGVEELIA  382 (615)
T ss_pred             cCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence                               123344333 446788999999999999999999999999999999888889999999998


Q ss_pred             HhcCCCHHHHHHHHHHHhh-------------CCCccchhhhhhhcCCCC
Q 020071          200 FTADGDMRQALNNLQATYS-------------GFRFVNQENVFKVCDQPH  236 (331)
Q Consensus       200 ~~~~g~~r~~~~~l~~~~~-------------~~~~i~~~~v~~~~~~~~  236 (331)
                      +++. +.|++++.|+.+..             ....|+.+++.++++...
T Consensus       383 ~ys~-~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~r  431 (615)
T TIGR02903       383 RYTI-EGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQISR  431 (615)
T ss_pred             HCCC-cHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCCCc
Confidence            8865 77999998865421             112578888888776643

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.

>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]

Probab=99.85  E-value=3.1e-18  Score=152.71  Aligned_cols=282  Identities=15%  Similarity=0.178  Sum_probs=220.3

Q ss_pred             HHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceE
Q 020071           36 RLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKV  114 (331)
Q Consensus        36 ~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~v  114 (331)
                      .+...+.++..+. +++||+.-.-....+..+.+...+++....+..+...+    ..+...+......++   ++++++
T Consensus         5 ~~~~~l~~~~~~~v~ll~G~d~~l~~e~~~~i~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~s~~l---F~~~~~   77 (334)
T COG1466           5 ELAKHLKKKNLMPVYLLYGEDEGLLEEAADAILKRALADGFDENYSFFDDSE----LDWADLLSELESPSL---FGEKRL   77 (334)
T ss_pred             HHHHHHhcCCCccEEEEecCChhHHHHHHHHHHHHHhccchhhHHhhccccc----CCHHHHHHHhhcccc---ccCCee
Confidence            3445555554444 69999998778888888888775443333333333222    256677777777776   888999


Q ss_pred             EEEeCCCCCC-HHHHHHHHHHHHHhc-CCcEEEEeeCCCC---CCChhhhcc--cceeeecCCCHHHHHHHHHHHHHhcC
Q 020071          115 VVLDEADSMT-AGAQQALRRTMEIYS-NSTRFALACNVSS---KIIEPIQSR--CAIVRFSRLSDEEILSRLMVVVQEEK  187 (331)
Q Consensus       115 viide~d~l~-~~~~~~Ll~~le~~~-~~~~~I~~~~~~~---~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~~~~  187 (331)
                      ++|+..+... .+....+......+| ..+.+++.++...   +..+.+..-  +.++.+.|++..++.+|+..++++.|
T Consensus        78 v~l~~~~~~~~~~~~~~l~~~~~~~p~~~~~l~~~~~kl~~~~~~~k~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~  157 (334)
T COG1466          78 VVLKNAEKKPNKDKNLALLELAALLPSTDLLLLVESNKLDKAKKLTKWLKKLAKAVVVECKPLDEAELPQWIKKRAKELG  157 (334)
T ss_pred             EEEECCCCCcCchhHHHHHHHHcCCCCCCEEEEEecCCcchHHHHHHHHHHhccCceEecCCCCHHHHHHHHHHHHHHcC
Confidence            9999998876 555666777777777 5665666554432   333344333  56899999999999999999999999


Q ss_pred             CCCCHHHHHHHHHhcCCCHHHHHHHHHHHh--hCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 020071          188 VPYVPEGLEAIIFTADGDMRQALNNLQATY--SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDL  265 (331)
Q Consensus       188 ~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~--~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~  265 (331)
                      +.++++++++++...+||++.+.+++++++  ...+.||.++|..++......++|++++++..++..+|+..++++...
T Consensus       158 l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~~~~f~l~dail~g~~~~a~~~l~~L~~~  237 (334)
T COG1466         158 LKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAEFNIFDLADALLKGDVKKALRLLRDLLLE  237 (334)
T ss_pred             CCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhccccCCHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            999999999999999999999999999885  333489999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHh--------------------cc---------------cChHhHHHHHHHHHHHHHHHhcCC-C
Q 020071          266 GYSPTDIITTLFRIIKN--------------------YE---------------MAEHLKLEFMKEAGFAHMRICDGV-G  309 (331)
Q Consensus       266 g~~~~~i~~~l~~~~~~--------------------~~---------------~~~~~~~~~~~~l~~~~~~l~~~~-~  309 (331)
                      |++|..|++.+.+....                    ++               ++...+.+++..+.+.++.++++. +
T Consensus       238 ge~p~~il~~l~~~f~~~~~l~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~r~s~~~l~~~l~~l~~~d~~~K~~~~d  317 (334)
T COG1466         238 GEEPLKLLAALTRQFRLLLQLKALAEKGKSLQQAAKSLGIPYRRKKLFKKAARRLSLKQLLKALRLLAQLDYQIKTGYGD  317 (334)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHcCcCHHHHHHHhcCcHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHhcCCcc
Confidence            99999999998774442                    11               333334588899999999999988 7


Q ss_pred             chHHHHHHHHHHHHH
Q 020071          310 SYLQLCGLLAKLSIV  324 (331)
Q Consensus       310 ~~l~l~~l~~~l~~~  324 (331)
                      +...++.++++++..
T Consensus       318 ~~~~l~~~l~~~~~~  332 (334)
T COG1466         318 PVWALELFLLRLLEL  332 (334)
T ss_pred             chHHHHHHHHHHhhc
Confidence            888999999888753

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.83  E-value=3.4e-19  Score=150.98  Aligned_cols=198  Identities=18%  Similarity=0.192  Sum_probs=146.5

Q ss_pred             CCCCCcccc--CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHH
Q 020071           21 PTKVCDIVG--NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIK   98 (331)
Q Consensus        21 p~~~~~~ig--~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~   98 (331)
                      |.+|+++++  +...+..+++++......+++|+||+|+|||++|+.+++.....  +.+++.+++.....  ...+.+.
T Consensus        11 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~--~~~~~~i~~~~~~~--~~~~~~~   86 (226)
T TIGR03420        11 DPTFDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEER--GKSAIYLPLAELAQ--ADPEVLE   86 (226)
T ss_pred             chhhcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEeHHHHHH--hHHHHHh
Confidence            457888873  67788999998776665669999999999999999999987533  23456666543311  1111111


Q ss_pred             HHHhcccCCCCCCceEEEEeCCCCCCHHH--HHHHHHHHHHhc-CCcEEEEeeCCC-CC--C-Chhhhccc---ceeeec
Q 020071           99 MFAQKKVTLPPGKHKVVVLDEADSMTAGA--QQALRRTMEIYS-NSTRFALACNVS-SK--I-IEPIQSRC---AIVRFS  168 (331)
Q Consensus        99 ~~~~~~~~~~~~~~~vviide~d~l~~~~--~~~Ll~~le~~~-~~~~~I~~~~~~-~~--l-~~~l~sr~---~~i~~~  168 (331)
                      .         ..+..+++|||+|.++...  ++.|..+++... .+..+|++++.. ..  . .+.+.+|+   ..+.++
T Consensus        87 ~---------~~~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~  157 (226)
T TIGR03420        87 G---------LEQADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLP  157 (226)
T ss_pred             h---------cccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecC
Confidence            1         1234699999999998644  788888877532 335677777643 22  2 27788886   478999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhh
Q 020071          169 RLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKV  231 (331)
Q Consensus       169 ~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~  231 (331)
                      |++.++...+++..+.+.++.+++++++.|++..+||+|.+.+.++.+.    .+.+.|+.+.+.++
T Consensus       158 ~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~~~i~~~~~~~~  224 (226)
T TIGR03420       158 PLSDEEKIAALQSRAARRGLQLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAKRKITIPFVKEV  224 (226)
T ss_pred             CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            9999999999999888889999999999999999999999999987652    34556887777664

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=99.83  E-value=1e-18  Score=147.93  Aligned_cols=209  Identities=17%  Similarity=0.171  Sum_probs=148.3

Q ss_pred             CCCchhhhcCCC-CCCccc-cC-HHHHHHHHHHHHc---CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           11 YDIPWVEKYRPT-KVCDIV-GN-LDAVARLGIIARD---GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        11 ~~~~~~~~~~p~-~~~~~i-g~-~~~~~~l~~~l~~---~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      +++|+.-.+.|. +|++++ |. ..++..+.++...   +..+.++||||+|+|||++++++++.+...  +..++.++.
T Consensus         4 ~Ql~l~~~~~~~~tfdnF~~~~~~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~~~~--~~~v~y~~~   81 (234)
T PRK05642          4 IQLPLGVRLRDDATFANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRFEQR--GEPAVYLPL   81 (234)
T ss_pred             cccccCCCCCCcccccccCcCChHHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCcEEEeeH
Confidence            577778887876 899987 33 3333344444332   122348999999999999999999887543  234455554


Q ss_pred             CCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC--HHHHHHHHHHHHHhcC-CcEEEEeeCCC----CCCChh
Q 020071           85 SDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT--AGAQQALRRTMEIYSN-STRFALACNVS----SKIIEP  157 (331)
Q Consensus        85 ~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~--~~~~~~Ll~~le~~~~-~~~~I~~~~~~----~~l~~~  157 (331)
                      .+...  ...+.++.+         .+..+++|||++.+.  +..++.|..++..... +.++|++++..    ....+.
T Consensus        82 ~~~~~--~~~~~~~~~---------~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~  150 (234)
T PRK05642         82 AELLD--RGPELLDNL---------EQYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPD  150 (234)
T ss_pred             HHHHh--hhHHHHHhh---------hhCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCcc
Confidence            33211  111111111         123589999999875  3446778888875443 56677777643    234699


Q ss_pred             hhccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhh
Q 020071          158 IQSRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFK  230 (331)
Q Consensus       158 l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~  230 (331)
                      ++||+   .++.+.+++.++...+++.++...++.++++++++|++..++|+|.+.+.++.+.    ...+.||...+++
T Consensus       151 L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~~~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~l~~~~~it~~~~~~  230 (234)
T PRK05642        151 LKSRLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDEVGHFILTRGTRSMSALFDLLERLDQASLQAQRKLTIPFLKE  230 (234)
T ss_pred             HHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHcCCcCCHHHHHH
Confidence            99998   8899999999999999998888889999999999999999999999999998763    2346788877776


Q ss_pred             hc
Q 020071          231 VC  232 (331)
Q Consensus       231 ~~  232 (331)
                      ++
T Consensus       231 ~L  232 (234)
T PRK05642        231 TL  232 (234)
T ss_pred             Hh
Confidence            54

>PRK06620 hypothetical protein; Validated

Probab=99.83  E-value=6.5e-19  Score=146.65  Aligned_cols=194  Identities=11%  Similarity=0.046  Sum_probs=133.5

Q ss_pred             CCCchhhhcCCC-CCCccc-c--CHHHHHHHHHHHHcC-C-C--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           11 YDIPWVEKYRPT-KVCDIV-G--NLDAVARLGIIARDG-N-M--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        11 ~~~~~~~~~~p~-~~~~~i-g--~~~~~~~l~~~l~~~-~-~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      +++++.-.+.|. +|++++ |  +..+...+..+.... . .  +.++||||+|+|||++++++++..     +..++  
T Consensus         1 ~Ql~l~~~~~~~~tfd~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~-----~~~~~--   73 (214)
T PRK06620          1 QQYIFRFTTSSKYHPDEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLS-----NAYII--   73 (214)
T ss_pred             CCcccCCCCCCCCCchhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHHHHHhcc-----CCEEc--
Confidence            345555555555 677765 3  456677777777632 2 2  348999999999999999988765     22121  


Q ss_pred             ecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC-C--CCChhhh
Q 020071           83 NASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS-S--KIIEPIQ  159 (331)
Q Consensus        83 ~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~-~--~l~~~l~  159 (331)
                      .....     ..    ..        .....+++|||+|.+.....-.+.+.+.+.  +..++++++.. .  .+ +.++
T Consensus        74 ~~~~~-----~~----~~--------~~~~d~lliDdi~~~~~~~lf~l~N~~~e~--g~~ilits~~~p~~l~l-~~L~  133 (214)
T PRK06620         74 KDIFF-----NE----EI--------LEKYNAFIIEDIENWQEPALLHIFNIINEK--QKYLLLTSSDKSRNFTL-PDLS  133 (214)
T ss_pred             chhhh-----ch----hH--------HhcCCEEEEeccccchHHHHHHHHHHHHhc--CCEEEEEcCCCccccch-HHHH
Confidence            11000     00    00        122469999999987543333333333332  33556665432 2  34 8999


Q ss_pred             cccc---eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhh
Q 020071          160 SRCA---IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKV  231 (331)
Q Consensus       160 sr~~---~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~  231 (331)
                      ||+.   ++.+.||+.+++..++++.+...++.++++++++|+++++||+|.+.+.++.+.    ...+.||.+.+.++
T Consensus       134 SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~~it~~~~~~~  212 (214)
T PRK06620        134 SRIKSVLSILLNSPDDELIKILIFKHFSISSVTISRQIIDFLLVNLPREYSKIIEILENINYFALISKRKITISLVKEV  212 (214)
T ss_pred             HHHhCCceEeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            9987   899999999999999999999899999999999999999999999999998763    23455777766654

>CHL00181 cbbX CbbX; Provisional

Probab=99.81  E-value=1.4e-18  Score=150.84  Aligned_cols=187  Identities=25%  Similarity=0.273  Sum_probs=133.1

Q ss_pred             CccccCHHHHHHHHHHHHc----------C-----CCCeEEEeCCCCccHHHHHHHHHHHhcCCCC--CCceEEeecCCC
Q 020071           25 CDIVGNLDAVARLGIIARD----------G-----NMPNLILAGPPGTGKTTSILALAHELLGPNY--REAVMELNASDD   87 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~----------~-----~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~--~~~~~~~~~~~~   87 (331)
                      .+++|.+.+++.+...+..          |     ...|++|+||||||||++|+.+++.+...+.  ..++++++..+.
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l  102 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDL  102 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHH
Confidence            3799999998876655321          1     2235899999999999999999998753322  234666664432


Q ss_pred             CCh--HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC---------CHHHHHHHHHHHHHhcCCcEEEEeeCCC-----
Q 020071           88 RGI--DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM---------TAGAQQALRRTMEIYSNSTRFALACNVS-----  151 (331)
Q Consensus        88 ~~~--~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l---------~~~~~~~Ll~~le~~~~~~~~I~~~~~~-----  151 (331)
                      .+.  ............      ...+.|+||||++.+         +.+.++.|+..|++...++++|++++..     
T Consensus       103 ~~~~~g~~~~~~~~~l~------~a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~  176 (287)
T CHL00181        103 VGQYIGHTAPKTKEVLK------KAMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKF  176 (287)
T ss_pred             HHHHhccchHHHHHHHH------HccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHH
Confidence            110  000001111111      123579999999986         4567899999999887788888876532     


Q ss_pred             CCCChhhhcccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh--------cCCCHHHHHHHHHHHh
Q 020071          152 SKIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFT--------ADGDMRQALNNLQATY  217 (331)
Q Consensus       152 ~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~--------~~g~~r~~~~~l~~~~  217 (331)
                      ....|.+++|+. .+.|+|++.+++.+++...+++.+..+++++...+..+        .-||.|.+.+.++.+.
T Consensus       177 ~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~~~  251 (287)
T CHL00181        177 YESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRNALDRAR  251 (287)
T ss_pred             HhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            134589999986 68999999999999999999999999998877666654        2389999999998764

>PRK09087 hypothetical protein; Validated

Probab=99.80  E-value=2.1e-18  Score=144.85  Aligned_cols=200  Identities=14%  Similarity=0.165  Sum_probs=143.4

Q ss_pred             CCCCchhhhcCCC-CCCcccc---CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           10 AYDIPWVEKYRPT-KVCDIVG---NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        10 ~~~~~~~~~~~p~-~~~~~ig---~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      +.++++.-.++|. +|++++.   +..++..+.++.. ...|.++||||+|+|||++++++++..     +..++  +..
T Consensus         5 ~~Ql~l~~~~~~~~~~~~Fi~~~~N~~a~~~l~~~~~-~~~~~l~l~G~~GsGKThLl~~~~~~~-----~~~~i--~~~   76 (226)
T PRK09087          5 PEQLPLNFSHDPAYGRDDLLVTESNRAAVSLVDHWPN-WPSPVVVLAGPVGSGKTHLASIWREKS-----DALLI--HPN   76 (226)
T ss_pred             CcceeeCCCCCCCCChhceeecCchHHHHHHHHhccc-CCCCeEEEECCCCCCHHHHHHHHHHhc-----CCEEe--cHH
Confidence            5677777777766 8999884   4556666655442 233448999999999999999998865     32233  221


Q ss_pred             CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcC-CcEEEEeeCCC----CCCChhhhc
Q 020071           86 DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSN-STRFALACNVS----SKIIEPIQS  160 (331)
Q Consensus        86 ~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~-~~~~I~~~~~~----~~l~~~l~s  160 (331)
                      .. +.+    .+.    .      ....+++|||++.+.. .+.+|..++..... +..+|++++..    ....+.++|
T Consensus        77 ~~-~~~----~~~----~------~~~~~l~iDDi~~~~~-~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~S  140 (226)
T PRK09087         77 EI-GSD----AAN----A------AAEGPVLIEDIDAGGF-DETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKS  140 (226)
T ss_pred             Hc-chH----HHH----h------hhcCeEEEECCCCCCC-CHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHH
Confidence            11 111    111    0      0124899999998753 45677777764433 56677777643    234688999


Q ss_pred             cc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhcC
Q 020071          161 RC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVCD  233 (331)
Q Consensus       161 r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~~  233 (331)
                      |+   .++++.||+.++...++++.++..++.++++++++|++.++|+++.+...++.+.    ...+.||...+++++.
T Consensus       141 Rl~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~~it~~~~~~~l~  220 (226)
T PRK09087        141 RLKAATVVEIGEPDDALLSQVIFKLFADRQLYVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKSRITRALAAEVLN  220 (226)
T ss_pred             HHhCCceeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence            97   8999999999999999999999999999999999999999999999998776552    3456688777776543

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

Probab=99.80  E-value=2.5e-18  Score=168.06  Aligned_cols=216  Identities=17%  Similarity=0.182  Sum_probs=160.4

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC-----CCceEEeecCC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY-----REAVMELNASD   86 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~   86 (331)
                      ..|++++.||..+++++|+++.+..+...+.....++++|+||||+|||++++.+++.+.....     +..++.++...
T Consensus       169 ~~~l~~~~r~~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~  248 (731)
T TIGR02639       169 TVDLTEKAKNGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGS  248 (731)
T ss_pred             hhhHHHHHhcCCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHH
Confidence            4489999999999999999999999999998888888999999999999999999998743321     33455655332


Q ss_pred             CC----ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC---------HHHHHHHHHHHHHhcCCcEEEEeeCCC--
Q 020071           87 DR----GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT---------AGAQQALRRTMEIYSNSTRFALACNVS--  151 (331)
Q Consensus        87 ~~----~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~---------~~~~~~Ll~~le~~~~~~~~I~~~~~~--  151 (331)
                      ..    ...++.+.++.......   ...+.++||||+|.+.         .+.++.|...++.  ..+.+|.+|+..  
T Consensus       249 l~a~~~~~g~~e~~l~~i~~~~~---~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~--g~i~~IgaTt~~e~  323 (731)
T TIGR02639       249 LLAGTKYRGDFEERLKAVVSEIE---KEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSS--GKLRCIGSTTYEEY  323 (731)
T ss_pred             HhhhccccchHHHHHHHHHHHHh---ccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhC--CCeEEEEecCHHHH
Confidence            21    11234444444433221   1236799999999884         2457778888874  567788888752  


Q ss_pred             ---CCCChhhhcccceeeecCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcCC------CHHHHHHHHHHHhh
Q 020071          152 ---SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE----EKVPYVPEGLEAIIFTADG------DMRQALNNLQATYS  218 (331)
Q Consensus       152 ---~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~~~~~l~~~~~  218 (331)
                         ....+++.+||+.+.+++|+.++...+++.....    .++.++++++..++.+++.      -+++++.+++.++.
T Consensus       324 ~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~kai~lld~a~a  403 (731)
T TIGR02639       324 KNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDKAIDVIDEAGA  403 (731)
T ss_pred             HHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHHHHHHHHHhhh
Confidence               3568999999999999999999999999976654    4678999999999988743      38999999976542


Q ss_pred             ---------CCCccchhhhhhhc
Q 020071          219 ---------GFRFVNQENVFKVC  232 (331)
Q Consensus       219 ---------~~~~i~~~~v~~~~  232 (331)
                               ....++.+++..++
T Consensus       404 ~~~~~~~~~~~~~v~~~~i~~~i  426 (731)
T TIGR02639       404 SFRLRPKAKKKANVSVKDIENVV  426 (731)
T ss_pred             hhhcCcccccccccCHHHHHHHH
Confidence                     12236666666543

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

Probab=99.79  E-value=6.6e-17  Score=144.40  Aligned_cols=276  Identities=18%  Similarity=0.245  Sum_probs=182.6

Q ss_pred             hhhcCCCCCCccccCHHHHHHHHHH----HHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH
Q 020071           16 VEKYRPTKVCDIVGNLDAVARLGII----ARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID   91 (331)
Q Consensus        16 ~~~~~p~~~~~~ig~~~~~~~l~~~----l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~   91 (331)
                      ...|-|..   +.+++..++.+...    +.++.+.++++||++|+|||..++.+.+++........++++||....+..
T Consensus        11 ~~~~iP~~---l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~   87 (366)
T COG1474          11 LEDYIPEE---LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPY   87 (366)
T ss_pred             CCCCCccc---ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHH
Confidence            34455544   77888888766554    445555559999999999999999999999765555558899987765543


Q ss_pred             hHHH-HHHHHHhcccC---------------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc---CCcEEEEeeCCC-
Q 020071           92 VVRN-KIKMFAQKKVT---------------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS---NSTRFALACNVS-  151 (331)
Q Consensus        92 ~i~~-~i~~~~~~~~~---------------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~---~~~~~I~~~~~~-  151 (331)
                      ++-. +.+.+...|..               ...+..-+|++||+|.|....++.|..++..+.   ..+.+|+++|+. 
T Consensus        88 ~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~  167 (366)
T COG1474          88 QVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDK  167 (366)
T ss_pred             HHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHH
Confidence            3222 22222111110               002457799999999998776566666665433   345677777775 


Q ss_pred             --CCCChhhhcccc--eeeecCCCHHHHHHHHHHHHHh--cCCCCCHHHHHHHHH---hcCCCHHHHHHHHHHHh-----
Q 020071          152 --SKIIEPIQSRCA--IVRFSRLSDEEILSRLMVVVQE--EKVPYVPEGLEAIIF---TADGDMRQALNNLQATY-----  217 (331)
Q Consensus       152 --~~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~---~~~g~~r~~~~~l~~~~-----  217 (331)
                        ..+.+.++|+..  .+.|+|++.+|+.++|..+++.  ..-.+++++++.++.   ..+||.|.++..|+.+.     
T Consensus       168 ~~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~  247 (366)
T COG1474         168 FLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAER  247 (366)
T ss_pred             HHHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHh
Confidence              467788888853  3689999999999999999874  234578888877764   45789999999998663     


Q ss_pred             hCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHH--HHHHHHHcCCCHHHHHHHHHHHHHhcccChHhHHHHHH
Q 020071          218 SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACS--GLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMK  295 (331)
Q Consensus       218 ~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~--~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~  295 (331)
                      .+...++.+++..+..........+.++.+   ...+-+.  .+.... ...+..+++..+...++..+.+......+++
T Consensus       248 ~~~~~v~~~~v~~a~~~~~~~~~~~~~~~L---~~~~ki~L~~i~~~~-~~~~~~~~y~~y~~~~~~~~~~~~~~~~ii~  323 (366)
T COG1474         248 EGSRKVSEDHVREAQEEIERDVLEEVLKTL---PLHQKIVLLAIVELT-VEISTGELYDVYESLCERLRTSQRRFSDIIS  323 (366)
T ss_pred             hCCCCcCHHHHHHHHHHhhHHHHHHHHHcC---CHhHHHHHHHHHHhc-CCCChHHHHHHHHHHHhhhCchHHHHHHHHH
Confidence            467789999999874444444444443333   2222222  111211 5577888888888888876553333444554


Q ss_pred             HHH
Q 020071          296 EAG  298 (331)
Q Consensus       296 ~l~  298 (331)
                      .+.
T Consensus       324 ~L~  326 (366)
T COG1474         324 ELE  326 (366)
T ss_pred             HHH
Confidence            443

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

Probab=99.78  E-value=9.4e-18  Score=143.57  Aligned_cols=198  Identities=19%  Similarity=0.278  Sum_probs=145.3

Q ss_pred             CCC-CCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           20 RPT-KVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        20 ~p~-~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      +|. +++|+=|-+..+++++..+.-           | .+|. +|||||||||||.+|+++|++.     +..|+.+.++
T Consensus       145 ~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T-----~AtFIrvvgS  219 (406)
T COG1222         145 KPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT-----DATFIRVVGS  219 (406)
T ss_pred             CCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc-----CceEEEeccH
Confidence            444 788999999999999998753           3 2333 9999999999999999999998     6778888776


Q ss_pred             CC------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHH-----HhcCCcE
Q 020071           86 DD------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTME-----IYSNSTR  143 (331)
Q Consensus        86 ~~------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le-----~~~~~~~  143 (331)
                      ..      .|...+++++.-+.+.       .+.+|||||+|.+.           .+.|-.++++|.     ++..++.
T Consensus       220 ElVqKYiGEGaRlVRelF~lArek-------aPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvK  292 (406)
T COG1222         220 ELVQKYIGEGARLVRELFELAREK-------APSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVK  292 (406)
T ss_pred             HHHHHHhccchHHHHHHHHHHhhc-------CCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeE
Confidence            53      2334566666555543       36799999999773           356777777776     3567999


Q ss_pred             EEEeeCCCCCCChhhhcc--c-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC----CHHHHHHHHHHH
Q 020071          144 FALACNVSSKIIEPIQSR--C-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG----DMRQALNNLQAT  216 (331)
Q Consensus       144 ~I~~~~~~~~l~~~l~sr--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g----~~r~~~~~l~~~  216 (331)
                      +|++||.+.-|.|+|.+-  + ..++|+.|+.+...++++-+.++-++. ++-.++.|++.+.|    +++.+..+.-..
T Consensus       293 VI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~-~dvd~e~la~~~~g~sGAdlkaictEAGm~  371 (406)
T COG1222         293 VIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLA-DDVDLELLARLTEGFSGADLKAICTEAGMF  371 (406)
T ss_pred             EEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCc-cCcCHHHHHHhcCCCchHHHHHHHHHHhHH
Confidence            999999999999999874  3 458999999999999998887766542 33347788888765    333333333222


Q ss_pred             h--hCCCccchhhhhh
Q 020071          217 Y--SGFRFVNQENVFK  230 (331)
Q Consensus       217 ~--~~~~~i~~~~v~~  230 (331)
                      +  .....+|.+|..+
T Consensus       372 AiR~~R~~Vt~~DF~~  387 (406)
T COG1222         372 AIRERRDEVTMEDFLK  387 (406)
T ss_pred             HHHhccCeecHHHHHH
Confidence            2  4555677776654

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.77  E-value=1.7e-17  Score=144.37  Aligned_cols=186  Identities=24%  Similarity=0.246  Sum_probs=134.5

Q ss_pred             ccccCHHHHHHHHHHHH----------cCC----C-CeEEEeCCCCccHHHHHHHHHHHhcCCCC--CCceEEeecCCCC
Q 020071           26 DIVGNLDAVARLGIIAR----------DGN----M-PNLILAGPPGTGKTTSILALAHELLGPNY--REAVMELNASDDR   88 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~----------~~~----~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~--~~~~~~~~~~~~~   88 (331)
                      +++|.+.+++.+.....          .|.    . .|++|+||||||||++|+.+++.+...+.  ..+++.+++.+..
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~  102 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLV  102 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHh
Confidence            68999998887755422          121    1 25999999999999999999988754332  2357777654321


Q ss_pred             Ch--HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC---------CHHHHHHHHHHHHHhcCCcEEEEeeCCC-----C
Q 020071           89 GI--DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM---------TAGAQQALRRTMEIYSNSTRFALACNVS-----S  152 (331)
Q Consensus        89 ~~--~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l---------~~~~~~~Ll~~le~~~~~~~~I~~~~~~-----~  152 (331)
                      +.  ......+.....      ...+.++||||++.+         +.+.++.|++.|+....++++|++++..     .
T Consensus       103 ~~~~g~~~~~~~~~~~------~a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~  176 (284)
T TIGR02880       103 GQYIGHTAPKTKEILK------RAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFF  176 (284)
T ss_pred             HhhcccchHHHHHHHH------HccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHH
Confidence            10  000011111111      123479999999977         3566889999999887788888876542     2


Q ss_pred             CCChhhhcccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh--------cCCCHHHHHHHHHHHh
Q 020071          153 KIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFT--------ADGDMRQALNNLQATY  217 (331)
Q Consensus       153 ~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~--------~~g~~r~~~~~l~~~~  217 (331)
                      .+.|.+++|+. .+.|+|++.+++..++...+++.+..+++++.+.+..+        ..||.|.+.|.++.+.
T Consensus       177 ~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~~  250 (284)
T TIGR02880       177 ESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRAR  250 (284)
T ss_pred             hhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHH
Confidence            35799999984 68999999999999999999998889999998888775        2499999999998764

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.77  E-value=1e-16  Score=148.86  Aligned_cols=208  Identities=19%  Similarity=0.192  Sum_probs=146.4

Q ss_pred             cCCC-CCCccc-c--CHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHh
Q 020071           19 YRPT-KVCDIV-G--NLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDV   92 (331)
Q Consensus        19 ~~p~-~~~~~i-g--~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (331)
                      +.|. +|++++ |  +..+...+..+..+.  ..+.++||||+|+|||++++++++.+.....+..++.+++.+..  ..
T Consensus       115 l~~~~tfd~fv~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~--~~  192 (450)
T PRK00149        115 LNPKYTFDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFT--ND  192 (450)
T ss_pred             CCCCCcccccccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH--HH
Confidence            4444 788865 4  344556666666542  22348999999999999999999998655444556666654321  11


Q ss_pred             HHHHHH-----HHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHHHHhc-CCcEEEEeeCCCC----CCChhhhc
Q 020071           93 VRNKIK-----MFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTMEIYS-NSTRFALACNVSS----KIIEPIQS  160 (331)
Q Consensus        93 i~~~i~-----~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~le~~~-~~~~~I~~~~~~~----~l~~~l~s  160 (331)
                      +...+.     .+...     .....+++|||+|.+..  ..++.|+.+++... .+..+|++++.+.    .+.+.++|
T Consensus       193 ~~~~~~~~~~~~~~~~-----~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~S  267 (450)
T PRK00149        193 FVNALRNNTMEEFKEK-----YRSVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRS  267 (450)
T ss_pred             HHHHHHcCcHHHHHHH-----HhcCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHh
Confidence            111111     11111     12356999999999854  35677777776432 2345667776542    36688999


Q ss_pred             cc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhcC
Q 020071          161 RC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVCD  233 (331)
Q Consensus       161 r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~~  233 (331)
                      |+   .++.+.||+.++...+++.++...++.++++++++|++.++||+|.+...+..+.    .....||.+.+.+++.
T Consensus       268 Rl~~gl~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~  347 (450)
T PRK00149        268 RFEWGLTVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALK  347 (450)
T ss_pred             HhcCCeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHH
Confidence            97   5799999999999999999999999999999999999999999999888887653    3456688888877655

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.76  E-value=2.9e-17  Score=161.75  Aligned_cols=198  Identities=17%  Similarity=0.175  Sum_probs=150.4

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC-----CCceEEeecCC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY-----REAVMELNASD   86 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~   86 (331)
                      ..+++++.||..+++++|+++.+.++...+..+..++++|+||||+|||++++.+++.+.....     +..++.++...
T Consensus       174 ~~~L~~~~r~~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~  253 (852)
T TIGR03345       174 TTDLTAQAREGKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL  253 (852)
T ss_pred             hhhHHHHhcCCCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh
Confidence            3478889999999999999999999999998988888999999999999999999998853321     23344444332


Q ss_pred             C----CCh----HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------HHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071           87 D----RGI----DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------GAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus        87 ~----~~~----~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .    ...    +.+++.++....      .+.+.|+||||+|.+..        +..+.|...++.  ...++|.+|+.
T Consensus       254 l~ag~~~~ge~e~~lk~ii~e~~~------~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~--G~l~~IgaTT~  325 (852)
T TIGR03345       254 LQAGASVKGEFENRLKSVIDEVKA------SPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR--GELRTIAATTW  325 (852)
T ss_pred             hhcccccchHHHHHHHHHHHHHHh------cCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC--CCeEEEEecCH
Confidence            1    122    234444444322      23467999999999953        234567788875  56778888875


Q ss_pred             C-----CCCChhhhcccceeeecCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcCC------CHHHHHHHHHH
Q 020071          151 S-----SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE----EKVPYVPEGLEAIIFTADG------DMRQALNNLQA  215 (331)
Q Consensus       151 ~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~~~~~l~~  215 (331)
                      .     ....+++.+||+.+.+++|+.++...+|+.....    .++.++++++..++.++.+      -|.+++.+++.
T Consensus       326 ~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~~r~LPDKAIdllde  405 (852)
T TIGR03345       326 AEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIPGRQLPDKAVSLLDT  405 (852)
T ss_pred             HHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccccccCccHHHHHHHH
Confidence            3     3578999999999999999999999997655543    4688999999999998853      58899999986


Q ss_pred             Hh
Q 020071          216 TY  217 (331)
Q Consensus       216 ~~  217 (331)
                      ++
T Consensus       406 a~  407 (852)
T TIGR03345       406 AC  407 (852)
T ss_pred             HH
Confidence            53

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.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.76  E-value=5.8e-16  Score=142.70  Aligned_cols=207  Identities=13%  Similarity=0.197  Sum_probs=146.3

Q ss_pred             CCCCCCccc-cC--HHHHHHHHHHHHc-CC-CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHH
Q 020071           20 RPTKVCDIV-GN--LDAVARLGIIARD-GN-MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVR   94 (331)
Q Consensus        20 ~p~~~~~~i-g~--~~~~~~l~~~l~~-~~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~   94 (331)
                      .+.+|+.++ |.  ..+...+.....+ +. .+.++|||++|+|||++++++++.+.....+..++.+++.+..  ..+.
T Consensus       110 ~~~tFdnFv~g~~n~~A~~aa~~~a~~~~~~~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~--~~~~  187 (450)
T PRK14087        110 NENTFENFVIGSSNEQAFIAVQTVSKNPGISYNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFA--RKAV  187 (450)
T ss_pred             cccchhcccCCCcHHHHHHHHHHHHhCcCcccCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH--HHHH
Confidence            356898876 43  3345555555554 22 2348999999999999999999987543334556666654321  1111


Q ss_pred             H-------HHHHHHhcccCCCCCCceEEEEeCCCCCC--HHHHHHHHHHHHHhc-CCcEEEEeeCCC----CCCChhhhc
Q 020071           95 N-------KIKMFAQKKVTLPPGKHKVVVLDEADSMT--AGAQQALRRTMEIYS-NSTRFALACNVS----SKIIEPIQS  160 (331)
Q Consensus        95 ~-------~i~~~~~~~~~~~~~~~~vviide~d~l~--~~~~~~Ll~~le~~~-~~~~~I~~~~~~----~~l~~~l~s  160 (331)
                      .       .+..+...     .....+++|||++.+.  ...++.|..++.... .+..+|++++..    ..+.+.++|
T Consensus       188 ~~l~~~~~~~~~~~~~-----~~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~S  262 (450)
T PRK14087        188 DILQKTHKEIEQFKNE-----ICQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLIT  262 (450)
T ss_pred             HHHHHhhhHHHHHHHH-----hccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHH
Confidence            1       11111111     1235699999999986  567788888877533 344678887754    245688999


Q ss_pred             cc---ceeeecCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hC--CCccchhhhh
Q 020071          161 RC---AIVRFSRLSDEEILSRLMVVVQEEKV--PYVPEGLEAIIFTADGDMRQALNNLQATY----SG--FRFVNQENVF  229 (331)
Q Consensus       161 r~---~~i~~~~~~~~~~~~~l~~~~~~~~~--~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~--~~~i~~~~v~  229 (331)
                      |+   .++.+.||+.++..++|++.++..|.  .++++++++|++.++||+|.+.+.+..+.    ..  ...||.+.+.
T Consensus       263 R~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~  342 (450)
T PRK14087        263 RFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVS  342 (450)
T ss_pred             HHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHH
Confidence            85   57899999999999999999988775  69999999999999999999999997662    12  3578988887


Q ss_pred             hhcC
Q 020071          230 KVCD  233 (331)
Q Consensus       230 ~~~~  233 (331)
                      +++.
T Consensus       343 ~~l~  346 (450)
T PRK14087        343 DLFR  346 (450)
T ss_pred             HHHh
Confidence            7664

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=99.75  E-value=9.7e-17  Score=149.00  Aligned_cols=204  Identities=22%  Similarity=0.308  Sum_probs=133.2

Q ss_pred             CCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcC---CCC-e-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee-
Q 020071           10 AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDG---NMP-N-LILAGPPGTGKTTSILALAHELLGPNYREAVMELN-   83 (331)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~---~~~-~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~-   83 (331)
                      +...||.+||+|++.+|++.|.+-++.++.|++..   ..+ . ++|+||+|+|||++++.+++++.     ..+.+.. 
T Consensus         4 ~~~~~W~~ky~P~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg-----~~v~Ew~n   78 (519)
T PF03215_consen    4 DESEPWVEKYAPKTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG-----FEVQEWIN   78 (519)
T ss_pred             cccCccchhcCCCCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC-----CeeEEecC
Confidence            45678999999999999999999999999998863   222 2 69999999999999999999983     3333321 


Q ss_pred             cCC----------CCC----hHhHHHHHHHHHhc-----cc---C----CCCCCceEEEEeCCCCCCHHHHHHHHH----
Q 020071           84 ASD----------DRG----IDVVRNKIKMFAQK-----KV---T----LPPGKHKVVVLDEADSMTAGAQQALRR----  133 (331)
Q Consensus        84 ~~~----------~~~----~~~i~~~i~~~~~~-----~~---~----~~~~~~~vviide~d~l~~~~~~~Ll~----  133 (331)
                      +..          ..+    .+........+...     ..   .    ....+++||+|+|+-.........|..    
T Consensus        79 p~~~~~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~~~~~f~~~L~~  158 (519)
T PF03215_consen   79 PVSFRESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHRDTSRFREALRQ  158 (519)
T ss_pred             CCCccccccccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccchhHHHHHHHHHH
Confidence            111          000    00001111111111     00   0    012468999999987654333244444    


Q ss_pred             HHHHhcC-CcEEEEee-CC------CC--------CCChhhhcc--cceeeecCCCHHHHHHHHHHHHHhc-----CC-C
Q 020071          134 TMEIYSN-STRFALAC-NV------SS--------KIIEPIQSR--CAIVRFSRLSDEEILSRLMVVVQEE-----KV-P  189 (331)
Q Consensus       134 ~le~~~~-~~~~I~~~-~~------~~--------~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~~~-----~~-~  189 (331)
                      ++..... -++||++- +.      ..        -+.+.+...  +..|.|.|+++.-+.+.|.+++..+     +. .
T Consensus       159 ~l~~~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i~~I~FNpIa~T~mkKaL~rI~~~E~~~~~~~~~  238 (519)
T PF03215_consen  159 YLRSSRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGITRIKFNPIAPTFMKKALKRILKKEARSSSGKNK  238 (519)
T ss_pred             HHHcCCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCceEEEecCCCHHHHHHHHHHHHHHHhhhhcCCcc
Confidence            4443222 23344441 11      11        244566554  6779999999999999999999877     22 2


Q ss_pred             CC--HHHHHHHHHhcCCCHHHHHHHHHHHhh
Q 020071          190 YV--PEGLEAIIFTADGDMRQALNNLQATYS  218 (331)
Q Consensus       190 i~--~~~~~~l~~~~~g~~r~~~~~l~~~~~  218 (331)
                      .+  .+.++.|++.++||+|.|++.||.++.
T Consensus       239 ~p~~~~~l~~I~~~s~GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  239 VPDKQSVLDSIAESSNGDIRSAINNLQFWCL  269 (519)
T ss_pred             CCChHHHHHHHHHhcCchHHHHHHHHHHHhc
Confidence            22  345899999999999999999998864

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.74  E-value=6.2e-16  Score=142.00  Aligned_cols=203  Identities=20%  Similarity=0.211  Sum_probs=140.9

Q ss_pred             CCCccc-cCHH--HHHHHHHHHHcC-C-CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH
Q 020071           23 KVCDIV-GNLD--AVARLGIIARDG-N-MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI   97 (331)
Q Consensus        23 ~~~~~i-g~~~--~~~~l~~~l~~~-~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i   97 (331)
                      +|++++ |...  +...+....... . ...++||||+|+|||++++++++.+.....+..++.+++.+..  ..+...+
T Consensus       108 tfd~fi~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~--~~~~~~~  185 (405)
T TIGR00362       108 TFDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFT--NDFVNAL  185 (405)
T ss_pred             cccccccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHH--HHHHHHH
Confidence            678754 5433  444555555542 2 2238999999999999999999998654444556666654321  1111111


Q ss_pred             -----HHHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHHHHh-cCCcEEEEeeCCC----CCCChhhhccc---
Q 020071           98 -----KMFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTMEIY-SNSTRFALACNVS----SKIIEPIQSRC---  162 (331)
Q Consensus        98 -----~~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~le~~-~~~~~~I~~~~~~----~~l~~~l~sr~---  162 (331)
                           ..+...     .....+++|||++.+..  ..++.|+.+++.. ..+..+|++++..    ..+.+.++||+   
T Consensus       186 ~~~~~~~~~~~-----~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g  260 (405)
T TIGR00362       186 RNNKMEEFKEK-----YRSVDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWG  260 (405)
T ss_pred             HcCCHHHHHHH-----HHhCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCC
Confidence                 111110     11246999999998854  3567788777643 2345677777653    34668899997   


Q ss_pred             ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhc
Q 020071          163 AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVC  232 (331)
Q Consensus       163 ~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~  232 (331)
                      ..+.|.||+.++...+++++++..++.++++++++|++...+|+|.+...+..+.    .....||.+.+.+++
T Consensus       261 ~~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L  334 (405)
T TIGR00362       261 LVVDIEPPDLETRLAILQKKAEEEGLELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEAL  334 (405)
T ss_pred             eEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            4689999999999999999999999999999999999999999999887776553    345668877776654

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).

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.74  E-value=1.2e-16  Score=149.98  Aligned_cols=203  Identities=20%  Similarity=0.209  Sum_probs=139.3

Q ss_pred             hcCCCCCCccccCHHHHHHHHHHHH-----------cCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           18 KYRPTKVCDIVGNLDAVARLGIIAR-----------DGNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        18 ~~~p~~~~~~ig~~~~~~~l~~~l~-----------~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      ...+.+|+|++|.++++..+...+.           +...|. +|||||||||||++|++++...     +.+++.+++.
T Consensus        48 ~~~~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~-----~~~~~~i~~~  122 (495)
T TIGR01241        48 EKPKVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----GVPFFSISGS  122 (495)
T ss_pred             CCCCCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc-----CCCeeeccHH
Confidence            3445699999999999987776654           123333 9999999999999999999987     6677777654


Q ss_pred             CC------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHhc--CCcE
Q 020071           86 DD------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIYS--NSTR  143 (331)
Q Consensus        86 ~~------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~~--~~~~  143 (331)
                      +.      .+...+++.+..+..       ..+.||+|||+|.+..              ...+.|+..|+...  .++.
T Consensus       123 ~~~~~~~g~~~~~l~~~f~~a~~-------~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~  195 (495)
T TIGR01241       123 DFVEMFVGVGASRVRDLFEQAKK-------NAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVI  195 (495)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHh-------cCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeE
Confidence            32      122344444444332       2356999999988743              12345555555332  3567


Q ss_pred             EEEeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH---
Q 020071          144 FALACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT---  216 (331)
Q Consensus       144 ~I~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~---  216 (331)
                      +|.+||.+..+.+++.+  |+ ..+.+++|+.++..++++..++..... ++..+..+++.+.| +.+.+.+.++.+   
T Consensus       196 vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~G~sgadl~~l~~eA~~~  274 (495)
T TIGR01241       196 VIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLA-PDVDLKAVARRTPGFSGADLANLLNEAALL  274 (495)
T ss_pred             EEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCC-cchhHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence            88889999999999987  54 457999999999999998887655433 34456778877755 444444444332   


Q ss_pred             --hhCCCccchhhhhhhcC
Q 020071          217 --YSGFRFVNQENVFKVCD  233 (331)
Q Consensus       217 --~~~~~~i~~~~v~~~~~  233 (331)
                        ..+...|+.+++.+.+.
T Consensus       275 a~~~~~~~i~~~~l~~a~~  293 (495)
T TIGR01241       275 AARKNKTEITMNDIEEAID  293 (495)
T ss_pred             HHHcCCCCCCHHHHHHHHH
Confidence              13556788888876543

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.74  E-value=1.9e-15  Score=141.05  Aligned_cols=213  Identities=18%  Similarity=0.187  Sum_probs=146.1

Q ss_pred             hhhhcCCC-CCCccc-cCHH--HHHHHHHHHHc-CCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           15 WVEKYRPT-KVCDIV-GNLD--AVARLGIIARD-GNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        15 ~~~~~~p~-~~~~~i-g~~~--~~~~l~~~l~~-~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      +.....|. +|++|+ |...  +...+...+.. +...+ ++|||++|+|||+|++++++.+.....+..++.+++.+..
T Consensus       277 ~~a~L~~~~TFDnFvvG~sN~~A~aaa~avae~~~~~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~  356 (617)
T PRK14086        277 PTARLNPKYTFDTFVIGASNRFAHAAAVAVAEAPAKAYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFT  356 (617)
T ss_pred             ccCCCCCCCCHhhhcCCCccHHHHHHHHHHHhCccccCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHH
Confidence            44455554 888886 4322  33345555543 22223 8999999999999999999987543234455666553321


Q ss_pred             C--hHhHHH-HHHHHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHHHHhcC-CcEEEEeeCCC----CCCChhh
Q 020071           89 G--IDVVRN-KIKMFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTMEIYSN-STRFALACNVS----SKIIEPI  158 (331)
Q Consensus        89 ~--~~~i~~-~i~~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~le~~~~-~~~~I~~~~~~----~~l~~~l  158 (331)
                      .  ...+.+ ....+...     .....+++|||++.+..  ..++.|+.+++.... +..+|++++..    ..+.+.|
T Consensus       357 ~el~~al~~~~~~~f~~~-----y~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL  431 (617)
T PRK14086        357 NEFINSIRDGKGDSFRRR-----YREMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRL  431 (617)
T ss_pred             HHHHHHHHhccHHHHHHH-----hhcCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHH
Confidence            0  000100 01111111     12357999999999853  346778888875443 45677777764    3567889


Q ss_pred             hccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhh
Q 020071          159 QSRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKV  231 (331)
Q Consensus       159 ~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~  231 (331)
                      +||+   .++.+.+|+.+....+|++.+...++.++++++++|++...+|+|.+...|..+.    .....||.+.+.++
T Consensus       432 ~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r~l~l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~v  511 (617)
T PRK14086        432 RNRFEWGLITDVQPPELETRIAILRKKAVQEQLNAPPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIV  511 (617)
T ss_pred             HhhhhcCceEEcCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHH
Confidence            9995   6789999999999999999999999999999999999999999999998887663    24556887776655


Q ss_pred             c
Q 020071          232 C  232 (331)
Q Consensus       232 ~  232 (331)
                      +
T Consensus       512 L  512 (617)
T PRK14086        512 L  512 (617)
T ss_pred             H
Confidence            4

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=99.74  E-value=5.9e-17  Score=135.60  Aligned_cols=188  Identities=21%  Similarity=0.250  Sum_probs=129.0

Q ss_pred             CCCccc-c--CHHHHHHHHHHHHcCCC--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH
Q 020071           23 KVCDIV-G--NLDAVARLGIIARDGNM--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI   97 (331)
Q Consensus        23 ~~~~~i-g--~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i   97 (331)
                      +|+.++ |  ++.+.............  +.++||||+|+|||++.+++++++.....+..++.+++.+.  ...+.+.+
T Consensus         6 tFdnfv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f--~~~~~~~~   83 (219)
T PF00308_consen    6 TFDNFVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEF--IREFADAL   83 (219)
T ss_dssp             SCCCS--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHH--HHHHHHHH
T ss_pred             ccccCCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHH--HHHHHHHH
Confidence            788875 5  56666666666665332  33899999999999999999998765444555666654322  01111111


Q ss_pred             -----HHHHhcccCCCCCCceEEEEeCCCCCCHHH--HHHHHHHHHHhc-CCcEEEEeeCCC----CCCChhhhcc---c
Q 020071           98 -----KMFAQKKVTLPPGKHKVVVLDEADSMTAGA--QQALRRTMEIYS-NSTRFALACNVS----SKIIEPIQSR---C  162 (331)
Q Consensus        98 -----~~~~~~~~~~~~~~~~vviide~d~l~~~~--~~~Ll~~le~~~-~~~~~I~~~~~~----~~l~~~l~sr---~  162 (331)
                           ..+...     .....+++|||++.+....  ++.|..+++... .+..+|++++..    ..+.+.++||   +
T Consensus        84 ~~~~~~~~~~~-----~~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~G  158 (219)
T PF00308_consen   84 RDGEIEEFKDR-----LRSADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWG  158 (219)
T ss_dssp             HTTSHHHHHHH-----HCTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCS
T ss_pred             Hcccchhhhhh-----hhcCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhc
Confidence                 111110     1246799999999997644  788888887542 345778887543    3456889999   5


Q ss_pred             ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh
Q 020071          163 AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY  217 (331)
Q Consensus       163 ~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~  217 (331)
                      .++.+.||+.++..+++++.+...|+.++++++++|++...+|+|.+...++.+.
T Consensus       159 l~~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~~l~~~~~~~~r~L~~~l~~l~  213 (219)
T PF00308_consen  159 LVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLARRFRRDVRELEGALNRLD  213 (219)
T ss_dssp             EEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHHHTTSSHHHHHHHHHHHH
T ss_pred             chhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhcCCHHHHHHHHHHHH
Confidence            6789999999999999999999999999999999999999999999999998763

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.74  E-value=3e-16  Score=144.08  Aligned_cols=210  Identities=13%  Similarity=0.184  Sum_probs=144.7

Q ss_pred             cCCC-CCCccc-cCHH--HHHHHHHHHHc-----C-CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           19 YRPT-KVCDIV-GNLD--AVARLGIIARD-----G-NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        19 ~~p~-~~~~~i-g~~~--~~~~l~~~l~~-----~-~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      ..|. +|++++ |...  +...+.++.+.     + ...+++||||+|+|||++++++++.+.+.  +..++.+++... 
T Consensus       104 l~~~~tFdnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~--~~~v~yi~~~~f-  180 (445)
T PRK12422        104 LDPLMTFANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRES--GGKILYVRSELF-  180 (445)
T ss_pred             CCccccccceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEeeHHHH-
Confidence            4454 888876 5333  33455555542     2 22348999999999999999999998654  344555554321 


Q ss_pred             ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHHHHh-cCCcEEEEeeCCC----CCCChhhhcc
Q 020071           89 GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTMEIY-SNSTRFALACNVS----SKIIEPIQSR  161 (331)
Q Consensus        89 ~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~le~~-~~~~~~I~~~~~~----~~l~~~l~sr  161 (331)
                       ...+.+.+..-....+........+++|||++.+..  ..++.|..++... ..+..+|++++..    ..+.+.++||
T Consensus       181 -~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR  259 (445)
T PRK12422        181 -TEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISR  259 (445)
T ss_pred             -HHHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhh
Confidence             011111111000000000023467999999999854  4577777776532 2356788887764    3567899999


Q ss_pred             c---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-------hCCCccchhhhhhh
Q 020071          162 C---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-------SGFRFVNQENVFKV  231 (331)
Q Consensus       162 ~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-------~~~~~i~~~~v~~~  231 (331)
                      +   .++.+.||+.++...++++.+...++.++++++++|+....+|+|.+.+.++.++       ..+..||.+.+.++
T Consensus       260 ~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~~~l~~evl~~la~~~~~dir~L~g~l~~l~~~~a~~~~~~~~i~~~~~~~~  339 (445)
T PRK12422        260 FEWGIAIPLHPLTKEGLRSFLERKAEALSIRIEETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSHQLLYVDDIKAL  339 (445)
T ss_pred             hcCCeEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHH
Confidence            8   6889999999999999999999999999999999999999999999999998762       13456888877765


Q ss_pred             c
Q 020071          232 C  232 (331)
Q Consensus       232 ~  232 (331)
                      +
T Consensus       340 l  340 (445)
T PRK12422        340 L  340 (445)
T ss_pred             H
Confidence            4

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.73  E-value=2.5e-15  Score=138.41  Aligned_cols=208  Identities=15%  Similarity=0.195  Sum_probs=143.1

Q ss_pred             cCCC-CCCccc-cCH--HHHHHHHHHHHc-CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH
Q 020071           19 YRPT-KVCDIV-GNL--DAVARLGIIARD-GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV   93 (331)
Q Consensus        19 ~~p~-~~~~~i-g~~--~~~~~l~~~l~~-~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i   93 (331)
                      +.|. +|++++ |..  .+.....+...+ +..++++||||+|+|||++++++++.+.....+..++.+++.+.  ...+
T Consensus        98 l~~~~tFdnFv~g~~n~~a~~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f--~~~~  175 (440)
T PRK14088         98 LNPDYTFENFVVGPGNSFAYHAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF--LNDL  175 (440)
T ss_pred             CCCCCcccccccCCchHHHHHHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHH--HHHH
Confidence            3443 788876 533  344455555553 33345999999999999999999998865444455666665431  1111


Q ss_pred             HHHH-----HHHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHHHHhc-CCcEEEEeeCCC-C---CCChhhhcc
Q 020071           94 RNKI-----KMFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTMEIYS-NSTRFALACNVS-S---KIIEPIQSR  161 (331)
Q Consensus        94 ~~~i-----~~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~le~~~-~~~~~I~~~~~~-~---~l~~~l~sr  161 (331)
                      ...+     ..+... +   .....+++|||++.+..  ..++.|..++.... .+..+|++++.. .   .+.+.++||
T Consensus       176 ~~~~~~~~~~~f~~~-~---~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR  251 (440)
T PRK14088        176 VDSMKEGKLNEFREK-Y---RKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSR  251 (440)
T ss_pred             HHHHhcccHHHHHHH-H---HhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhH
Confidence            1111     111110 0   11356999999998743  34667777766433 234567766543 2   456789999


Q ss_pred             cc---eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhc
Q 020071          162 CA---IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVC  232 (331)
Q Consensus       162 ~~---~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~  232 (331)
                      +.   ++.+.||+.+....++++.+...++.++++.+++|++...||+|.+...+..+.    ..+..||.+.+.+++
T Consensus       252 ~~~gl~v~i~~pd~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L  329 (440)
T PRK14088        252 FQMGLVAKLEPPDEETRKKIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLL  329 (440)
T ss_pred             HhcCceEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHH
Confidence            75   789999999999999999999999999999999999999999999999887663    345668887776654

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.73  E-value=3.9e-16  Score=141.81  Aligned_cols=196  Identities=20%  Similarity=0.240  Sum_probs=131.1

Q ss_pred             CCCCccccCHHHHHHHHHHHHc-----------C-CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           22 TKVCDIVGNLDAVARLGIIARD-----------G-NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      ..|+++.|.+..++.+...+..           | ..| ++|||||||||||++|+++++.+     +.+++.+++.+..
T Consensus       128 ~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~-----~~~~i~v~~~~l~  202 (389)
T PRK03992        128 VTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET-----NATFIRVVGSELV  202 (389)
T ss_pred             CCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh-----CCCEEEeehHHHh
Confidence            3788999999999998887632           1 223 39999999999999999999998     5667777765431


Q ss_pred             C------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----cCCcEEEE
Q 020071           89 G------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEIY-----SNSTRFAL  146 (331)
Q Consensus        89 ~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~~-----~~~~~~I~  146 (331)
                      .      ...+++.+....       ...+.+|+|||+|.+.           .+.+..+..++.+.     ..++.+|+
T Consensus       203 ~~~~g~~~~~i~~~f~~a~-------~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~  275 (389)
T PRK03992        203 QKFIGEGARLVRELFELAR-------EKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIA  275 (389)
T ss_pred             HhhccchHHHHHHHHHHHH-------hcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEE
Confidence            1      122233332222       2235799999999883           33455566666432     24678999


Q ss_pred             eeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH---h--
Q 020071          147 ACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT---Y--  217 (331)
Q Consensus       147 ~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~---~--  217 (331)
                      +||.+..+.+++.+  |+ ..+.|++|+.++..++++..++...+. ++.....++..+.| +.+.+..++..+   +  
T Consensus       276 aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~-~~~~~~~la~~t~g~sgadl~~l~~eA~~~a~~  354 (389)
T PRK03992        276 ATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLA-DDVDLEELAELTEGASGADLKAICTEAGMFAIR  354 (389)
T ss_pred             ecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCC-CcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999875  65 458999999999999999877654432 12346677777655 334444444332   2  


Q ss_pred             hCCCccchhhhhh
Q 020071          218 SGFRFVNQENVFK  230 (331)
Q Consensus       218 ~~~~~i~~~~v~~  230 (331)
                      .+...|+.+++.+
T Consensus       355 ~~~~~i~~~d~~~  367 (389)
T PRK03992        355 DDRTEVTMEDFLK  367 (389)
T ss_pred             cCCCCcCHHHHHH
Confidence            2334456555544

>PRK14700 recombination factor protein RarA; Provisional

Probab=99.73  E-value=5e-16  Score=131.81  Aligned_cols=145  Identities=19%  Similarity=0.146  Sum_probs=122.7

Q ss_pred             CcEEEEeeC--CCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhc------CCCCCHHHHHHHHHhcCCCHHHHHHH
Q 020071          141 STRFALACN--VSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEE------KVPYVPEGLEAIIFTADGDMRQALNN  212 (331)
Q Consensus       141 ~~~~I~~~~--~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~------~~~i~~~~~~~l~~~~~g~~r~~~~~  212 (331)
                      .+.+|.+|+  ....+.++|+|||+++.|.|++.+++..++++.+...      .+.+++++++.|++.++||.|.++|.
T Consensus         8 ~i~LIGATTENP~f~vn~ALlSR~~v~~l~~L~~~di~~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN~   87 (300)
T PRK14700          8 KIILIGATTENPTYYLNDALVSRLFILRLKRLSLVATQKLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILNL   87 (300)
T ss_pred             cEEEEeecCCCccceecHhhhhhhheeeecCCCHHHHHHHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHHH
Confidence            455666543  3478999999999999999999999999999988642      36799999999999999999999999


Q ss_pred             HHHHhh---CCC--ccchhhhhhhcC----------CCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHH
Q 020071          213 LQATYS---GFR--FVNQENVFKVCD----------QPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLF  277 (331)
Q Consensus       213 l~~~~~---~~~--~i~~~~v~~~~~----------~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~  277 (331)
                      |+.+..   ...  .||.+.+.+.+.          ..+++.+..+++++.+.|.++|+.|+..|+..|++|..|.+.|.
T Consensus        88 LE~a~~~~~~~~~~~it~~~~~~~~~~~~~~yDk~gd~HYd~iSAf~KSiRGSDpDAAlYyLArml~~GEDp~~IaRRLi  167 (300)
T PRK14700         88 LERMFLISTRGDEIYLNKELFDQAVGETSRDFHREGKEFYEQLSAFHKSVRGTDPDAAIFWLSVMLDNGVDPLVIARRML  167 (300)
T ss_pred             HHHHHhhccccCCCccCHHHHHHHHhHHHhcccCCcchhHHHHHHHHHHhhcCCccHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            998542   122  389888887663          35778899999999999999999999999999999999999998


Q ss_pred             HHHHh-ccc
Q 020071          278 RIIKN-YEM  285 (331)
Q Consensus       278 ~~~~~-~~~  285 (331)
                      ..+.+ +|+
T Consensus       168 i~AsEDIGl  176 (300)
T PRK14700        168 CIASEDIGN  176 (300)
T ss_pred             HHHHhhccC
Confidence            87765 565

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

Probab=99.72  E-value=6.6e-16  Score=132.06  Aligned_cols=119  Identities=23%  Similarity=0.235  Sum_probs=101.3

Q ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC------------CCCCChhhhcccceeeecCCCHHHHHHHH
Q 020071          112 HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV------------SSKIIEPIQSRCAIVRFSRLSDEEILSRL  179 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~------------~~~l~~~l~sr~~~i~~~~~~~~~~~~~l  179 (331)
                      +.|+||||+|.|.-++...|.+.||+.-.- .+|+++|.            |.-++..+.+|..++...|++.+++++++
T Consensus       292 pGVLFIDEvHmLDIE~FsFlnrAlEse~aP-Iii~AtNRG~~kiRGTd~~sPhGIP~DlLDRllII~t~py~~~EireIi  370 (450)
T COG1224         292 PGVLFIDEVHMLDIECFSFLNRALESELAP-IIILATNRGMTKIRGTDIESPHGIPLDLLDRLLIISTRPYSREEIREII  370 (450)
T ss_pred             cceEEEechhhhhHHHHHHHHHHhhcccCc-EEEEEcCCceeeecccCCcCCCCCCHhhhhheeEEecCCCCHHHHHHHH
Confidence            679999999999999999999999974432 35666664            46789999999999999999999999999


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHhc-CCCHHHHHHHHHHH---h--hCCCccchhhhhhh
Q 020071          180 MVVVQEEKVPYVPEGLEAIIFTA-DGDMRQALNNLQAT---Y--SGFRFVNQENVFKV  231 (331)
Q Consensus       180 ~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~---~--~~~~~i~~~~v~~~  231 (331)
                      +.+++.+++.++++++++|+... ..++|-++++|.-+   +  .++..+..++|.++
T Consensus       371 ~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a  428 (450)
T COG1224         371 RIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERA  428 (450)
T ss_pred             HHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHH
Confidence            99999999999999999999886 46999999999633   2  45668888888763

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.72  E-value=1.1e-15  Score=141.14  Aligned_cols=200  Identities=17%  Similarity=0.156  Sum_probs=137.5

Q ss_pred             CCCCCccccCHHHHHHHHHHHH--------cC-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC--
Q 020071           21 PTKVCDIVGNLDAVARLGIIAR--------DG-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR--   88 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~--------~~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--   88 (331)
                      +.+|+++.|.+.+++.+.....        .| ..|. +|||||||||||.+|+++++.+     +.+++.++++...  
T Consensus       224 ~~~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~-----~~~~~~l~~~~l~~~  298 (489)
T CHL00195        224 NEKISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW-----QLPLLRLDVGKLFGG  298 (489)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEEhHHhccc
Confidence            4578999999988887765321        12 2233 9999999999999999999998     7788888765421  


Q ss_pred             --C--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH------------HHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           89 --G--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA------------GAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        89 --~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~------------~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                        +  ...+++.+..+..       ..+.|++|||+|.+..            .....|+..+++....+.+|.+||++.
T Consensus       299 ~vGese~~l~~~f~~A~~-------~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~  371 (489)
T CHL00195        299 IVGESESRMRQMIRIAEA-------LSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNID  371 (489)
T ss_pred             ccChHHHHHHHHHHHHHh-------cCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChh
Confidence              1  2234444443322       2367999999997632            123556777777666778888999999


Q ss_pred             CCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHhcCC----CHHHHHHHHHHH-hhCCCcc
Q 020071          153 KIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVP-YVPEGLEAIIFTADG----DMRQALNNLQAT-YSGFRFV  223 (331)
Q Consensus       153 ~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~-i~~~~~~~l~~~~~g----~~r~~~~~l~~~-~~~~~~i  223 (331)
                      .+++++.+  |+ ..+.++.|+.++..++++..+++.+.. .++..++.+++.+.|    ++..++...-.. ....+.+
T Consensus       372 ~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~~~A~~~~~~l  451 (489)
T CHL00195        372 LLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYEKREF  451 (489)
T ss_pred             hCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHHHHHHHcCCCc
Confidence            99999976  66 457899999999999999888775432 345557888888755    444433332211 2344566


Q ss_pred             chhhhhhhc
Q 020071          224 NQENVFKVC  232 (331)
Q Consensus       224 ~~~~v~~~~  232 (331)
                      +.+++...+
T Consensus       452 t~~dl~~a~  460 (489)
T CHL00195        452 TTDDILLAL  460 (489)
T ss_pred             CHHHHHHHH
Confidence            766665543

>CHL00176 ftsH cell division protein; Validated

Probab=99.72  E-value=4.6e-16  Score=148.07  Aligned_cols=200  Identities=22%  Similarity=0.223  Sum_probs=138.5

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      ..+|+|++|.++.++.+...+..           ...| ++||+||||+|||++|++++...     +.+++.+++++..
T Consensus       179 ~~~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~-----~~p~i~is~s~f~  253 (638)
T CHL00176        179 GITFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----EVPFFSISGSEFV  253 (638)
T ss_pred             CCCHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCeeeccHHHHH
Confidence            35899999999999887666521           1223 49999999999999999999987     6677777765431


Q ss_pred             ------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHH---HHHHHHHHHh--cCCcEEEE
Q 020071           89 ------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQ---QALRRTMEIY--SNSTRFAL  146 (331)
Q Consensus        89 ------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~---~~Ll~~le~~--~~~~~~I~  146 (331)
                            +...+++.+..+.       ...+.+++|||+|.+.           .+..   +.|+..++..  ..++++|.
T Consensus       254 ~~~~g~~~~~vr~lF~~A~-------~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIa  326 (638)
T CHL00176        254 EMFVGVGAARVRDLFKKAK-------ENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIA  326 (638)
T ss_pred             HHhhhhhHHHHHHHHHHHh-------cCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEE
Confidence                  1223333333322       2346799999999883           2223   3444444432  34677888


Q ss_pred             eeCCCCCCChhhhcc--c-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHh-----
Q 020071          147 ACNVSSKIIEPIQSR--C-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQATY-----  217 (331)
Q Consensus       147 ~~~~~~~l~~~l~sr--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~~-----  217 (331)
                      +||.+..+.+++.++  + ..+.+++|+.++..++++..++.... .++..+..+++.+.| +.+.+.+.++.++     
T Consensus       327 aTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~-~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a~r  405 (638)
T CHL00176        327 ATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL-SPDVSLELIARRTPGFSGADLANLLNEAAILTAR  405 (638)
T ss_pred             ecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc-chhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            899989999999874  3 56899999999999999998876442 345567889988876 5555555554332     


Q ss_pred             hCCCccchhhhhhhcC
Q 020071          218 SGFRFVNQENVFKVCD  233 (331)
Q Consensus       218 ~~~~~i~~~~v~~~~~  233 (331)
                      .+...|+.+++.+.+.
T Consensus       406 ~~~~~It~~dl~~Ai~  421 (638)
T CHL00176        406 RKKATITMKEIDTAID  421 (638)
T ss_pred             hCCCCcCHHHHHHHHH
Confidence            3455688888876543

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

Probab=99.71  E-value=1.7e-15  Score=136.30  Aligned_cols=200  Identities=18%  Similarity=0.269  Sum_probs=135.2

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHH-----cCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIAR-----DGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~-----~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      ..+|.+||+|.+.+++.-|..-+..++.|++     ..+.++  +||+||+|+||||.++.+++.+     +..+.+...
T Consensus        69 ~elW~eKy~P~t~eeLAVHkkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel-----g~~~~Ew~N  143 (634)
T KOG1970|consen   69 FELWVEKYKPRTLEELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL-----GYQLIEWSN  143 (634)
T ss_pred             cchhHHhcCcccHHHHhhhHHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh-----CceeeeecC
Confidence            3479999999999999999999999999999     566666  6999999999999999999999     444443321


Q ss_pred             C-----------CC--CC------hHhHHHHHHHHHh-----cccCCCCCCceEEEEeCCCCCCHH-HHHHHHHHHH---
Q 020071           85 S-----------DD--RG------IDVVRNKIKMFAQ-----KKVTLPPGKHKVVVLDEADSMTAG-AQQALRRTME---  136 (331)
Q Consensus        85 ~-----------~~--~~------~~~i~~~i~~~~~-----~~~~~~~~~~~vviide~d~l~~~-~~~~Ll~~le---  136 (331)
                      +           +.  .+      .......+.....     ....-..+.+++++|||+-..... ....+...|.   
T Consensus       144 pi~~~~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~d~~~~f~evL~~y~  223 (634)
T KOG1970|consen  144 PINLKEPENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYRDDSETFREVLRLYV  223 (634)
T ss_pred             CccccccccccccchhcccchhhHHHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhhhhhhHHHHHHHHHHHH
Confidence            0           00  00      1111112222211     111111345679999997655322 3334444333   


Q ss_pred             -HhcCCcEEEEeeCCC--------CCCChh--hhcccceeeecCCCHHHHHHHHHHHHHhcCCCCC------HHHHHHHH
Q 020071          137 -IYSNSTRFALACNVS--------SKIIEP--IQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV------PEGLEAII  199 (331)
Q Consensus       137 -~~~~~~~~I~~~~~~--------~~l~~~--l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~------~~~~~~l~  199 (331)
                       .+..-++||++ +..        ......  ..-|...+.|.|+.+.-+.+.|..+|..++...+      ...++.++
T Consensus       224 s~g~~PlIf~iT-d~~~~g~nnq~rlf~~d~q~~~ri~~IsFNPIa~T~MKK~L~ric~~e~~~~s~~k~~~~~~v~~i~  302 (634)
T KOG1970|consen  224 SIGRCPLIFIIT-DSLSNGNNNQDRLFPKDIQEEPRISNISFNPIAPTIMKKFLKRICRIEANKKSGIKVPDTAEVELIC  302 (634)
T ss_pred             hcCCCcEEEEEe-ccccCCCcchhhhchhhhhhccCcceEeecCCcHHHHHHHHHHHHHHhcccccCCcCchhHHHHHHH
Confidence             33333334443 221        122233  3445678999999999999999999998877666      56789999


Q ss_pred             HhcCCCHHHHHHHHHHHh
Q 020071          200 FTADGDMRQALNNLQATY  217 (331)
Q Consensus       200 ~~~~g~~r~~~~~l~~~~  217 (331)
                      ..++||+|.|++.||..+
T Consensus       303 ~~s~GDIRsAInsLQlss  320 (634)
T KOG1970|consen  303 QGSGGDIRSAINSLQLSS  320 (634)
T ss_pred             HhcCccHHHHHhHhhhhc
Confidence            999999999999999763

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

Probab=99.71  E-value=5.1e-16  Score=141.33  Aligned_cols=204  Identities=20%  Similarity=0.230  Sum_probs=134.9

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHc-----------C-CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceE
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARD-----------G-NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVM   80 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~   80 (331)
                      .+.+++.+.+|+|+.|.+..++.+...+.-           | ..| +++||||||||||++|+++++.+     ..+++
T Consensus       172 ~~~~~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el-----~~~fi  246 (438)
T PTZ00361        172 MKVDKAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET-----SATFL  246 (438)
T ss_pred             cccccCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh-----CCCEE
Confidence            356677778999999999999998887752           1 222 38999999999999999999988     55677


Q ss_pred             EeecCCCCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHH-----h
Q 020071           81 ELNASDDRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEI-----Y  138 (331)
Q Consensus        81 ~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~-----~  138 (331)
                      .+.+++...      ...+++.+..+.       ...+.+++|||+|.+.           .+.+..++.++..     .
T Consensus       247 ~V~~seL~~k~~Ge~~~~vr~lF~~A~-------~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~  319 (438)
T PTZ00361        247 RVVGSELIQKYLGDGPKLVRELFRVAE-------ENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDS  319 (438)
T ss_pred             EEecchhhhhhcchHHHHHHHHHHHHH-------hCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcc
Confidence            776554311      112333333222       2346799999998763           1234444444432     2


Q ss_pred             cCCcEEEEeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcC----CCHHHHHH
Q 020071          139 SNSTRFALACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTAD----GDMRQALN  211 (331)
Q Consensus       139 ~~~~~~I~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~----g~~r~~~~  211 (331)
                      ..++.+|++||....+.+++.+  |+ ..+.|++|+.++..++++....+..+. ++..+..++..+.    .+++.++.
T Consensus       320 ~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~-~dvdl~~la~~t~g~sgAdI~~i~~  398 (438)
T PTZ00361        320 RGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLA-EDVDLEEFIMAKDELSGADIKAICT  398 (438)
T ss_pred             cCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCC-cCcCHHHHHHhcCCCCHHHHHHHHH
Confidence            4578899999999999998875  54 458999999999999999877665432 1223455665543    34444433


Q ss_pred             HHHHHh--hCCCccchhhhhh
Q 020071          212 NLQATY--SGFRFVNQENVFK  230 (331)
Q Consensus       212 ~l~~~~--~~~~~i~~~~v~~  230 (331)
                      .....+  .+...|+.+++.+
T Consensus       399 eA~~~Alr~~r~~Vt~~D~~~  419 (438)
T PTZ00361        399 EAGLLALRERRMKVTQADFRK  419 (438)
T ss_pred             HHHHHHHHhcCCccCHHHHHH
Confidence            332222  3445677777655

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

Probab=99.71  E-value=5.8e-16  Score=142.13  Aligned_cols=183  Identities=20%  Similarity=0.213  Sum_probs=135.4

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      ...+|+||-|+++.+..++..+..           | ..|. ||||||||||||++|+++++..     +.+|+.+.+++
T Consensus       429 p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~-----~~nFlsvkgpE  503 (693)
T KOG0730|consen  429 PNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA-----GMNFLSVKGPE  503 (693)
T ss_pred             CCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh-----cCCeeeccCHH
Confidence            455899999999999999877653           3 3333 9999999999999999999998     77788876654


Q ss_pred             C------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH-----------HHHHHHHHHHH--hcCCcEEEEe
Q 020071           87 D------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG-----------AQQALRRTMEI--YSNSTRFALA  147 (331)
Q Consensus        87 ~------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~-----------~~~~Ll~~le~--~~~~~~~I~~  147 (331)
                      .      .+...+++.+..+.+.+       ..|+|+||+|.+..+           ..+.|+.-|+.  -..++.+|.+
T Consensus       504 L~sk~vGeSEr~ir~iF~kAR~~a-------P~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAA  576 (693)
T KOG0730|consen  504 LFSKYVGESERAIREVFRKARQVA-------PCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAA  576 (693)
T ss_pred             HHHHhcCchHHHHHHHHHHHhhcC-------CeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEec
Confidence            3      23346667666655543       479999999988432           24455555552  2356778888


Q ss_pred             eCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCC-CHHHHHHHHHHH
Q 020071          148 CNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPE-GLEAIIFTADG-DMRQALNNLQAT  216 (331)
Q Consensus       148 ~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g-~~r~~~~~l~~~  216 (331)
                      ||.+..+.+++.+  |+ ..+.+++|+.+-..++++..+++-.  ++++ .++.|++.+.| +-..+.+.++.+
T Consensus       577 TNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp--~~~~vdl~~La~~T~g~SGAel~~lCq~A  648 (693)
T KOG0730|consen  577 TNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMP--FSEDVDLEELAQATEGYSGAEIVAVCQEA  648 (693)
T ss_pred             cCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCC--CCccccHHHHHHHhccCChHHHHHHHHHH
Confidence            9999999999999  66 5679999999999999998876554  4444 68889987765 445555555544

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.70  E-value=9.5e-16  Score=132.16  Aligned_cols=187  Identities=17%  Similarity=0.160  Sum_probs=125.3

Q ss_pred             HHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH-H--------HHHHHHH-
Q 020071           32 DAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV-R--------NKIKMFA-  101 (331)
Q Consensus        32 ~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i-~--------~~i~~~~-  101 (331)
                      +..+.+..++..+.  +++|+||+|+|||++|+.+++.+     +.+++.+++........+ .        .....+. 
T Consensus         9 ~l~~~~l~~l~~g~--~vLL~G~~GtGKT~lA~~la~~l-----g~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~   81 (262)
T TIGR02640         9 RVTSRALRYLKSGY--PVHLRGPAGTGKTTLAMHVARKR-----DRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIH   81 (262)
T ss_pred             HHHHHHHHHHhcCC--eEEEEcCCCCCHHHHHHHHHHHh-----CCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHH
Confidence            34556666666665  59999999999999999999977     667777776543221111 0        0111110 


Q ss_pred             --------------hcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh----------------cCCcEEEEeeCCC
Q 020071          102 --------------QKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY----------------SNSTRFALACNVS  151 (331)
Q Consensus       102 --------------~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~----------------~~~~~~I~~~~~~  151 (331)
                                    ..++......+.+++|||+++++++.++.|+.+|++.                ++++++|+++|..
T Consensus        82 ~~~~~~~~~~~~~~~g~l~~A~~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~  161 (262)
T TIGR02640        82 NVVKLEDIVRQNWVDNRLTLAVREGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPV  161 (262)
T ss_pred             HhhhhhcccceeecCchHHHHHHcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCc
Confidence                          1111100123569999999999999999999999742                2467889998864


Q ss_pred             -----CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcC----------CCHHHHHHHHHHH
Q 020071          152 -----SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTAD----------GDMRQALNNLQAT  216 (331)
Q Consensus       152 -----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~----------g~~r~~~~~l~~~  216 (331)
                           ..+.+.+.+||..+.+..|+.++..+++....     .++++.++.+++...          -.+|.++...+.+
T Consensus       162 ~~~g~~~l~~aL~~R~~~i~i~~P~~~~e~~Il~~~~-----~~~~~~~~~iv~~~~~~R~~~~~~~~~~r~~i~~~~~~  236 (262)
T TIGR02640       162 EYAGVHETQDALLDRLITIFMDYPDIDTETAILRAKT-----DVAEDSAATIVRLVREFRASGDEITSGLRASLMIAEVA  236 (262)
T ss_pred             cccceecccHHHHhhcEEEECCCCCHHHHHHHHHHhh-----CCCHHHHHHHHHHHHHHHhhCCccCCcHHHHHHHHHHH
Confidence                 35688999999999999999999999988754     467777776665431          1366666666655


Q ss_pred             hh--CCCccchhhhhh
Q 020071          217 YS--GFRFVNQENVFK  230 (331)
Q Consensus       217 ~~--~~~~i~~~~v~~  230 (331)
                      ..  ....++.+++.+
T Consensus       237 ~~~~~~~~~~~~~~~~  252 (262)
T TIGR02640       237 TQQDIPVDVDDEDFVD  252 (262)
T ss_pred             HHcCCCCCCCcHHHHH
Confidence            32  223445554443

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).

>PRK08485 DNA polymerase III subunit delta'; Validated

Probab=99.70  E-value=2.1e-16  Score=125.93  Aligned_cols=133  Identities=17%  Similarity=0.142  Sum_probs=112.9

Q ss_pred             CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCC
Q 020071           76 REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKII  155 (331)
Q Consensus        76 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~  155 (331)
                      +...+.+-..+..+++++++.++.....+.     ..+ +||+++|.++..++|+|++++|+||.++.||++|+++.+++
T Consensus        25 ~~~~~~~f~~~~i~Vd~iReii~~~~~~~~-----~~k-~iI~~a~~l~~~A~NaLLK~LEEPp~~~~fiL~t~~~~~ll   98 (206)
T PRK08485         25 GKKNLRFFIKEEFKIEDAKEVIAEAYIAES-----EEK-IIVIAAPSYGIEAQNALLKILEEPPKNICFIIVAKSKNLLL   98 (206)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHhhCCC-----CcE-EEEEchHhhCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCc
Confidence            344444445556799999999988777652     344 46789999999999999999999999999999999999999


Q ss_pred             hhhhcccce-------------eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHH
Q 020071          156 EPIQSRCAI-------------VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQA  215 (331)
Q Consensus       156 ~~l~sr~~~-------------i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~  215 (331)
                      +|++|||+.             +.|.+++.+++.+++.+ ..++++...+++.+.|++.+.|.+|.++...+.
T Consensus        99 pTI~SRc~~~~~~~~~~~~~l~l~l~~l~~~~i~~~L~~-~~ke~~~~~~ea~~lIa~la~~s~r~~l~l~~q  170 (206)
T PRK08485         99 PTIRSRLIIEKRKQKKPVKPLDLDLKKLDLKDIYEFLKE-LEKENKLSKEELKELIESLLKECVKYKIPLNEE  170 (206)
T ss_pred             hHHHhhheeccccccccccccccccCCCCHHHHHHHHHH-HHHcccccHHHHHHHHHHHHHHHHHHHcCccHH
Confidence            999999986             77999999999999998 677888788889999999999999888766654

>TIGR00763 lon ATP-dependent protease La

Probab=99.69  E-value=4.4e-16  Score=153.12  Aligned_cols=179  Identities=21%  Similarity=0.270  Sum_probs=125.7

Q ss_pred             ccccCHHHHHHHHHHHHc------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHH-----
Q 020071           26 DIVGNLDAVARLGIIARD------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVR-----   94 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~-----   94 (331)
                      +++|++.+++.+..++..      ...++++|+||||+|||++|+.+++.+     +.+++.++.........+.     
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l-----~~~~~~i~~~~~~~~~~i~g~~~~  395 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL-----NRKFVRFSLGGVRDEAEIRGHRRT  395 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh-----cCCeEEEeCCCcccHHHHcCCCCc
Confidence            588999999988876542      133468999999999999999999998     5566666654322111111     


Q ss_pred             -------HHHHHHHhcccCCCCCCceEEEEeCCCCCCHH----HHHHHHHHHHHh---------------cCCcEEEEee
Q 020071           95 -------NKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG----AQQALRRTMEIY---------------SNSTRFALAC  148 (331)
Q Consensus        95 -------~~i~~~~~~~~~~~~~~~~vviide~d~l~~~----~~~~Ll~~le~~---------------~~~~~~I~~~  148 (331)
                             ...+.+...     .....|++|||+|.++..    ..++|+.+++..               ..++.||+++
T Consensus       396 ~~g~~~g~i~~~l~~~-----~~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~Tt  470 (775)
T TIGR00763       396 YVGAMPGRIIQGLKKA-----KTKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATA  470 (775)
T ss_pred             eeCCCCchHHHHHHHh-----CcCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEec
Confidence                   111111111     123359999999999753    347899888731               1357889999


Q ss_pred             CCCCCCChhhhcccceeeecCCCHHHHHHHHHHHH-----Hhc-----CCCCCHHHHHHHHHhcC--CCHHHHHHHHH
Q 020071          149 NVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVV-----QEE-----KVPYVPEGLEAIIFTAD--GDMRQALNNLQ  214 (331)
Q Consensus       149 ~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~-----~~~-----~~~i~~~~~~~l~~~~~--g~~r~~~~~l~  214 (331)
                      |....+++++++||.++.|++++.++...+++..+     +..     ++.++++++..|++...  ...|.+...++
T Consensus       471 N~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l~r~i~  548 (775)
T TIGR00763       471 NSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNLERQIE  548 (775)
T ss_pred             CCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHHHHHHH
Confidence            99999999999999999999999999888876653     222     45789999999987432  34455444443

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.

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

Probab=99.69  E-value=2.5e-15  Score=135.95  Aligned_cols=197  Identities=18%  Similarity=0.220  Sum_probs=131.3

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc-----------C-CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD-----------G-NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      +.+|+|+.|.+..++.++..+..           | ..| +++||||||+|||++|+++++.+     ...++.+.++..
T Consensus       141 ~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l-----~~~fi~i~~s~l  215 (398)
T PTZ00454        141 DVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT-----TATFIRVVGSEF  215 (398)
T ss_pred             CCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc-----CCCEEEEehHHH
Confidence            44899999999999988887642           2 122 39999999999999999999987     556666654332


Q ss_pred             C------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHH---HH--hcCCcEEE
Q 020071           88 R------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTM---EI--YSNSTRFA  145 (331)
Q Consensus        88 ~------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~l---e~--~~~~~~~I  145 (331)
                      .      +...+++.+..+.       ...+.+|+|||+|.+..           ..+..+..++   +.  ...++.+|
T Consensus       216 ~~k~~ge~~~~lr~lf~~A~-------~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI  288 (398)
T PTZ00454        216 VQKYLGEGPRMVRDVFRLAR-------ENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVI  288 (398)
T ss_pred             HHHhcchhHHHHHHHHHHHH-------hcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEE
Confidence            1      1122333333222       23467999999997631           2333444444   32  23467899


Q ss_pred             EeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHh----
Q 020071          146 LACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQATY----  217 (331)
Q Consensus       146 ~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~~----  217 (331)
                      ++||.++.+.+++.+  |+ ..+.|++|+.++...+++....+.++. ++-.+..++..+.| +...+.+++..+.    
T Consensus       289 ~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~-~dvd~~~la~~t~g~sgaDI~~l~~eA~~~A~  367 (398)
T PTZ00454        289 MATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLS-EEVDLEDFVSRPEKISAADIAAICQEAGMQAV  367 (398)
T ss_pred             EecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCC-cccCHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999876  55 447999999999999998877765543 22346677777654 5555555555432    


Q ss_pred             -hCCCccchhhhhh
Q 020071          218 -SGFRFVNQENVFK  230 (331)
Q Consensus       218 -~~~~~i~~~~v~~  230 (331)
                       .+...|+.+++.+
T Consensus       368 r~~~~~i~~~df~~  381 (398)
T PTZ00454        368 RKNRYVILPKDFEK  381 (398)
T ss_pred             HcCCCccCHHHHHH
Confidence             2334566665544

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.67  E-value=3.6e-15  Score=134.96  Aligned_cols=202  Identities=19%  Similarity=0.197  Sum_probs=129.3

Q ss_pred             CCCCCccccCHHHHHHHHHHHHcC------------C-CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           21 PTKVCDIVGNLDAVARLGIIARDG------------N-MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~~------------~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      ...|+++.|.+..++.+...+...            . ..+++||||||+|||++|+++++.+     ...++.+.+...
T Consensus       118 ~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l-----~~~~~~v~~~~l  192 (364)
T TIGR01242       118 NVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET-----NATFIRVVGSEL  192 (364)
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC-----CCCEEecchHHH
Confidence            447889999999999998876421            1 2239999999999999999999988     455666554322


Q ss_pred             CC--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----cCCcEEEEeeC
Q 020071           88 RG--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEIY-----SNSTRFALACN  149 (331)
Q Consensus        88 ~~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~~-----~~~~~~I~~~~  149 (331)
                      ..  .......+.......-   ...+.+|+|||+|.+.           ...+..+..++.+.     ..++.+|++||
T Consensus       193 ~~~~~g~~~~~i~~~f~~a~---~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn  269 (364)
T TIGR01242       193 VRKYIGEGARLVREIFELAK---EKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATN  269 (364)
T ss_pred             HHHhhhHHHHHHHHHHHHHH---hcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecC
Confidence            10  0011111111111111   2235699999999873           23345555555432     35788999999


Q ss_pred             CCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH---h--hCC
Q 020071          150 VSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT---Y--SGF  220 (331)
Q Consensus       150 ~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~---~--~~~  220 (331)
                      .+..+.+++.+  |+ ..+.|++|+.++..++++......... ++.....+++.+.| +.+.+.+.+..+   +  .+.
T Consensus       270 ~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~-~~~~~~~la~~t~g~sg~dl~~l~~~A~~~a~~~~~  348 (364)
T TIGR01242       270 RPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLA-EDVDLEAIAKMTEGASGADLKAICTEAGMFAIREER  348 (364)
T ss_pred             ChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCC-ccCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCC
Confidence            99999999875  54 468999999999999998876544322 11246777777755 333444444332   1  344


Q ss_pred             Cccchhhhhhh
Q 020071          221 RFVNQENVFKV  231 (331)
Q Consensus       221 ~~i~~~~v~~~  231 (331)
                      ..|+.+++.++
T Consensus       349 ~~i~~~d~~~a  359 (364)
T TIGR01242       349 DYVTMDDFIKA  359 (364)
T ss_pred             CccCHHHHHHH
Confidence            56777766553

Many proteins may score above the trusted cutoff because an internal

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

Probab=99.67  E-value=3.4e-15  Score=135.65  Aligned_cols=176  Identities=20%  Similarity=0.220  Sum_probs=132.9

Q ss_pred             CCCccccCHHHHHHHHHHHHc----------CCCC-e-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC--
Q 020071           23 KVCDIVGNLDAVARLGIIARD----------GNMP-N-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR--   88 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~----------~~~~-~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--   88 (331)
                      .|.++=|.+..+..|..++..          |-.| . +||+||||||||.+|++++.++     +.+|+.++++...  
T Consensus       188 ~f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel-----~vPf~~isApeivSG  262 (802)
T KOG0733|consen  188 SFSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL-----GVPFLSISAPEIVSG  262 (802)
T ss_pred             chhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc-----CCceEeecchhhhcc
Confidence            588999999999988877643          3333 3 9999999999999999999999     8999999876542  


Q ss_pred             ----ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH-----------HHHHHHHHHHHhc------CCcEEEEe
Q 020071           89 ----GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG-----------AQQALRRTMEIYS------NSTRFALA  147 (331)
Q Consensus        89 ----~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~-----------~~~~Ll~~le~~~------~~~~~I~~  147 (331)
                          +.+.+++.+..+...       -+.++||||+|.+++.           ....|+..|++..      ..+.+|.+
T Consensus       263 vSGESEkkiRelF~~A~~~-------aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgA  335 (802)
T KOG0733|consen  263 VSGESEKKIRELFDQAKSN-------APCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGA  335 (802)
T ss_pred             cCcccHHHHHHHHHHHhcc-------CCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEec
Confidence                335677776665543       3679999999999753           2346777777543      45778888


Q ss_pred             eCCCCCCChhhhcc--c-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHH
Q 020071          148 CNVSSKIIEPIQSR--C-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN  211 (331)
Q Consensus       148 ~~~~~~l~~~l~sr--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~  211 (331)
                      ||.+..+.++|++-  + ..|.+.-|+.....++|+.+|+...+.- +-....|++++.|-.+.-+.
T Consensus       336 TnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g-~~d~~qlA~lTPGfVGADL~  401 (802)
T KOG0733|consen  336 TNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSG-DFDFKQLAKLTPGFVGADLM  401 (802)
T ss_pred             CCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCC-CcCHHHHHhcCCCccchhHH
Confidence            99999999999874  3 3478888999999999999987544332 22367889988775544333

>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=99.66  E-value=2.7e-15  Score=130.28  Aligned_cols=103  Identities=23%  Similarity=0.269  Sum_probs=78.9

Q ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC------------CCCCChhhhcccceeeecCCCHHHHHHHH
Q 020071          112 HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV------------SSKIIEPIQSRCAIVRFSRLSDEEILSRL  179 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~------------~~~l~~~l~sr~~~i~~~~~~~~~~~~~l  179 (331)
                      ++|+||||+|.|.-+...-|.+.+|.+-. =.+|++||.            +.-++..+.+||.++...|++.+|+.+++
T Consensus       279 pGVLFIDEvHmLDiEcFsfLnralEs~~s-PiiIlATNRg~~~irGt~~~sphGiP~DlLDRllII~t~py~~~ei~~Il  357 (398)
T PF06068_consen  279 PGVLFIDEVHMLDIECFSFLNRALESELS-PIIILATNRGITKIRGTDIISPHGIPLDLLDRLLIIRTKPYSEEEIKQIL  357 (398)
T ss_dssp             E-EEEEESGGGSBHHHHHHHHHHHTSTT---EEEEEES-SEEE-BTTS-EEETT--HHHHTTEEEEEE----HHHHHHHH
T ss_pred             cceEEecchhhccHHHHHHHHHHhcCCCC-cEEEEecCceeeeccCccCcCCCCCCcchHhhcEEEECCCCCHHHHHHHH
Confidence            67999999999999999999999996543 246677764            45788999999999999999999999999


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHhc-CCCHHHHHHHHHH
Q 020071          180 MVVVQEEKVPYVPEGLEAIIFTA-DGDMRQALNNLQA  215 (331)
Q Consensus       180 ~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~~~~~l~~  215 (331)
                      .-+|+.+++.+++++++.|.+.. ..++|-+++++.-
T Consensus       358 ~iR~~~E~v~i~~~al~~L~~ig~~~SLRYAiqLi~~  394 (398)
T PF06068_consen  358 KIRAKEEDVEISEDALDLLTKIGVETSLRYAIQLITP  394 (398)
T ss_dssp             HHHHHHCT--B-HHHHHHHHHHHHHS-HHHHHHCHHH
T ss_pred             HhhhhhhcCcCCHHHHHHHHHHhhhccHHHHHHhhhh
Confidence            99999999999999999999875 5689999988754

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.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=99.66  E-value=1.7e-14  Score=125.47  Aligned_cols=215  Identities=20%  Similarity=0.181  Sum_probs=136.2

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC----
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR----   88 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~----   88 (331)
                      .||.....|..|-.--++.++...+...+..+. +.++++||+|+|||++++.+++.+.+...  ....+......    
T Consensus        11 ~pF~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~l~G~~G~GKTtl~~~l~~~l~~~~~--~~~~~~~~~~~~~~~   87 (269)
T TIGR03015        11 KPFQLLPDPDFFYPSKGHKRAMAYLEYGLSQRE-GFILITGEVGAGKTTLIRNLLKRLDQERV--VAAKLVNTRVDAEDL   87 (269)
T ss_pred             CCCCCCCCHHHhCCCHHHHHHHHHHHHHHhcCC-CEEEEEcCCCCCHHHHHHHHHHhcCCCCe--EEeeeeCCCCCHHHH
Confidence            466666556555555566667777776666543 23799999999999999999998864321  11111110000    


Q ss_pred             -------------C--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh---cCCcEEEEeeCC
Q 020071           89 -------------G--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY---SNSTRFALACNV  150 (331)
Q Consensus        89 -------------~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~---~~~~~~I~~~~~  150 (331)
                                   +  .......+..+.....  ..++..+++|||++.++....+.|..+.+..   ...+.++++...
T Consensus        88 l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~--~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~  165 (269)
T TIGR03015        88 LRMVAADFGLETEGRDKAALLRELEDFLIEQF--AAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQP  165 (269)
T ss_pred             HHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHH--hCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCH
Confidence                         0  0000111111111100  1345679999999999988777766544421   122344555432


Q ss_pred             C------CCCChhhhcc-cceeeecCCCHHHHHHHHHHHHHhcC----CCCCHHHHHHHHHhcCCCHHHHHHHHHHH---
Q 020071          151 S------SKIIEPIQSR-CAIVRFSRLSDEEILSRLMVVVQEEK----VPYVPEGLEAIIFTADGDMRQALNNLQAT---  216 (331)
Q Consensus       151 ~------~~l~~~l~sr-~~~i~~~~~~~~~~~~~l~~~~~~~~----~~i~~~~~~~l~~~~~g~~r~~~~~l~~~---  216 (331)
                      .      ..-...+.+| +..+.++|++.+++.+++..++...+    ..+++++++.|++.++|++|.+...+..+   
T Consensus       166 ~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~  245 (269)
T TIGR03015       166 EFRETLQSPQLQQLRQRIIASCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLS  245 (269)
T ss_pred             HHHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHH
Confidence            1      1113456777 45789999999999999999887654    36899999999999999999977777654   


Q ss_pred             --hhCCCccchhhhhhhc
Q 020071          217 --YSGFRFVNQENVFKVC  232 (331)
Q Consensus       217 --~~~~~~i~~~~v~~~~  232 (331)
                        ..+.+.|+.++|..++
T Consensus       246 a~~~~~~~i~~~~v~~~~  263 (269)
T TIGR03015       246 AFLEEKREIGGEEVREVI  263 (269)
T ss_pred             HHHcCCCCCCHHHHHHHH
Confidence              2456678888887643

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.

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

Probab=99.65  E-value=2.1e-14  Score=118.76  Aligned_cols=189  Identities=17%  Similarity=0.181  Sum_probs=136.7

Q ss_pred             hcCCCCCCccccCHHHHHHHHHHHH---cCCC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH
Q 020071           18 KYRPTKVCDIVGNLDAVARLGIIAR---DGNM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV   93 (331)
Q Consensus        18 ~~~p~~~~~~ig~~~~~~~l~~~l~---~~~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i   93 (331)
                      ...|..+++++|.++.++.|.+...   .|.. .|+|+||+.|||||++++++...+..++  ..++++...+......+
T Consensus        20 ~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G--LRlIev~k~~L~~l~~l   97 (249)
T PF05673_consen   20 HPDPIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG--LRLIEVSKEDLGDLPEL   97 (249)
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC--ceEEEECHHHhccHHHH
Confidence            3467789999999999987765543   2443 4499999999999999999999987664  56788877766544444


Q ss_pred             HHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-HHHHHHHHHHH----HhcCCcEEEEeeCCCCCCChh-----------
Q 020071           94 RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-GAQQALRRTME----IYSNSTRFALACNVSSKIIEP-----------  157 (331)
Q Consensus        94 ~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-~~~~~Ll~~le----~~~~~~~~I~~~~~~~~l~~~-----------  157 (331)
                      .+.+.   ..+      .+-||++||...=.. ..-..|..+||    ..|.++.+..|+|...-+...           
T Consensus        98 ~~~l~---~~~------~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~~d~~~~~~~e  168 (249)
T PF05673_consen   98 LDLLR---DRP------YKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPESFSDREDIQDDE  168 (249)
T ss_pred             HHHHh---cCC------CCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchhhhhccCCCccc
Confidence            44433   332      367999999654332 33456666665    577888888888875433322           


Q ss_pred             ------------hhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCH-----HHHHHHHHhcCCCHHHHHHHHHHHh
Q 020071          158 ------------IQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVP-----EGLEAIIFTADGDMRQALNNLQATY  217 (331)
Q Consensus       158 ------------l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~-----~~~~~l~~~~~g~~r~~~~~l~~~~  217 (331)
                                  |..|+ ..+.|.|++.++..++++..+++.|+.+++     +++++-..+.+-+.|.|.+.++.+.
T Consensus       169 ih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~wa~~rg~RSGRtA~QF~~~l~  246 (249)
T PF05673_consen  169 IHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQEALQWALRRGGRSGRTARQFIDDLA  246 (249)
T ss_pred             cCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHh
Confidence                        23343 458999999999999999999999999985     3445555555669999999887764

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

Probab=99.65  E-value=5e-15  Score=144.47  Aligned_cols=214  Identities=20%  Similarity=0.232  Sum_probs=144.5

Q ss_pred             CCCchhhhcCCCCC---------C-ccccCHHHHHHHHHHHHc------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           11 YDIPWVEKYRPTKV---------C-DIVGNLDAVARLGIIARD------GNMPNLILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        11 ~~~~~~~~~~p~~~---------~-~~ig~~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      .++||... .+..+         + +..|++++++++..++..      ...+.++|+||||+|||++++.+++.+    
T Consensus       299 ~~~pw~~~-~~~~~~~~~~~~~l~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l----  373 (784)
T PRK10787        299 VQVPWNAR-SKVKKDLRQAQEILDTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT----  373 (784)
T ss_pred             HhCCCCCC-CcccccHHHHHHHhhhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh----
Confidence            45788664 33332         2 488999999988766552      233448999999999999999999988    


Q ss_pred             CCCceEEeecCCCCChHhHHHHH------------HHHHhcccCCCCCCceEEEEeCCCCCCHHH----HHHHHHHHHHh
Q 020071           75 YREAVMELNASDDRGIDVVRNKI------------KMFAQKKVTLPPGKHKVVVLDEADSMTAGA----QQALRRTMEIY  138 (331)
Q Consensus        75 ~~~~~~~~~~~~~~~~~~i~~~i------------~~~~~~~~~~~~~~~~vviide~d~l~~~~----~~~Ll~~le~~  138 (331)
                       +.+++.++.........+....            ..+...     .....|++|||+|+++...    +.+|+.+++.-
T Consensus       374 -~~~~~~i~~~~~~d~~~i~g~~~~~~g~~~G~~~~~l~~~-----~~~~~villDEidk~~~~~~g~~~~aLlevld~~  447 (784)
T PRK10787        374 -GRKYVRMALGGVRDEAEIRGHRRTYIGSMPGKLIQKMAKV-----GVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPE  447 (784)
T ss_pred             -CCCEEEEEcCCCCCHHHhccchhccCCCCCcHHHHHHHhc-----CCCCCEEEEEChhhcccccCCCHHHHHHHHhccc
Confidence             5667777655433322222211            111111     1234699999999998754    58999999731


Q ss_pred             ---------------cCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHH-----h-----cCCCCCHH
Q 020071          139 ---------------SNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ-----E-----EKVPYVPE  193 (331)
Q Consensus       139 ---------------~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~-----~-----~~~~i~~~  193 (331)
                                     -.++.||+|+|.. .+++++++||.++.|.+++.++..+++++...     +     ..+.++++
T Consensus       448 ~~~~~~d~~~~~~~dls~v~~i~TaN~~-~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~  526 (784)
T PRK10787        448 QNVAFSDHYLEVDYDLSDVMFVATSNSM-NIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDS  526 (784)
T ss_pred             cEEEEecccccccccCCceEEEEcCCCC-CCCHHHhcceeeeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHH
Confidence                           1566777777765 59999999999999999999999988877653     1     23568999


Q ss_pred             HHHHHHHhcC--CCHHHHHHHHHHHh--------hC----CCccchhhhhhhcCCCC
Q 020071          194 GLEAIIFTAD--GDMRQALNNLQATY--------SG----FRFVNQENVFKVCDQPH  236 (331)
Q Consensus       194 ~~~~l~~~~~--g~~r~~~~~l~~~~--------~~----~~~i~~~~v~~~~~~~~  236 (331)
                      ++..+++.+.  --.|.+.+.++..+        ..    .-.|+.+++.+.++...
T Consensus       527 ai~~ii~~yt~e~GaR~LeR~I~~i~r~~l~~~~~~~~~~~v~v~~~~~~~~lg~~~  583 (784)
T PRK10787        527 AIIGIIRYYTREAGVRSLEREISKLCRKAVKQLLLDKSLKHIEINGDNLHDYLGVQR  583 (784)
T ss_pred             HHHHHHHhCCcccCCcHHHHHHHHHHHHHHHHHHhcCCCceeeecHHHHHHHhCCCc
Confidence            9999997532  12344333333221        11    12578888888777643

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.65  E-value=6.2e-15  Score=146.32  Aligned_cols=202  Identities=15%  Similarity=0.179  Sum_probs=147.2

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEEeecCC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVMELNASD   86 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~   86 (331)
                      ..+++++.||..+++++|+++.+..+...+.....++++|+||||+|||++++.+++.+....     .+..++.++...
T Consensus       160 ~~~l~~~~~~~~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~  239 (852)
T TIGR03346       160 ARDLTERAREGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA  239 (852)
T ss_pred             hhhHHHHhhCCCCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH
Confidence            348999999999999999999999999999888877899999999999999999999874321     123445544322


Q ss_pred             C----CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------HHHHHHHHHHHHhcCCcEEEEeeCCC---
Q 020071           87 D----RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------GAQQALRRTMEIYSNSTRFALACNVS---  151 (331)
Q Consensus        87 ~----~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------~~~~~Ll~~le~~~~~~~~I~~~~~~---  151 (331)
                      .    ....++.+.+.........  ..++.|+||||+|.+..        +..+.|...++.  ....+|.+|+..   
T Consensus       240 l~a~~~~~g~~e~~l~~~l~~~~~--~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~--g~i~~IgaTt~~e~r  315 (852)
T TIGR03346       240 LIAGAKYRGEFEERLKAVLNEVTK--SEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR--GELHCIGATTLDEYR  315 (852)
T ss_pred             HhhcchhhhhHHHHHHHHHHHHHh--cCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc--CceEEEEeCcHHHHH
Confidence            1    0111222232222221100  23478999999998852        345666666643  457788877764   


Q ss_pred             --CCCChhhhcccceeeecCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcCC------CHHHHHHHHHHHh
Q 020071          152 --SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE----EKVPYVPEGLEAIIFTADG------DMRQALNNLQATY  217 (331)
Q Consensus       152 --~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~~~~~l~~~~  217 (331)
                        ....+++.+||+.+.+++|+.++...+++....+    +++.++++++..++.++.+      -|.+|+.+++.++
T Consensus       316 ~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~~r~lPdkAidlld~a~  393 (852)
T TIGR03346       316 KYIEKDAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYITDRFLPDKAIDLIDEAA  393 (852)
T ss_pred             HHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhccccccccCCchHHHHHHHHHH
Confidence              3568999999999999999999999998876554    4677899999888887753      3899999998764

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.

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

Probab=99.64  E-value=1.3e-14  Score=129.30  Aligned_cols=209  Identities=20%  Similarity=0.250  Sum_probs=147.2

Q ss_pred             hcCCC-CCCccc-c--CHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC--
Q 020071           18 KYRPT-KVCDIV-G--NLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG--   89 (331)
Q Consensus        18 ~~~p~-~~~~~i-g--~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--   89 (331)
                      ...|. +|+.++ |  +..+......+.+..  ..+.++||||.|.|||++++++++.....+....++.+.......  
T Consensus        79 ~l~~~ytFdnFv~g~~N~~A~aa~~~va~~~g~~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~  158 (408)
T COG0593          79 GLNPKYTFDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDF  158 (408)
T ss_pred             cCCCCCchhheeeCCchHHHHHHHHHHHhccCCcCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHH
Confidence            34444 677765 3  444455555555543  233489999999999999999999987776666666665443210  


Q ss_pred             hHhHHH-HHHHHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHHHHhcCC-cEEEEeeCCC----CCCChhhhcc
Q 020071           90 IDVVRN-KIKMFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTMEIYSNS-TRFALACNVS----SKIIEPIQSR  161 (331)
Q Consensus        90 ~~~i~~-~i~~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~le~~~~~-~~~I~~~~~~----~~l~~~l~sr  161 (331)
                      +..+++ ....+...     . ...+++|||++.+..  ..++.|..++.....+ -.+|+++..+    ..+.+.++||
T Consensus       159 v~a~~~~~~~~Fk~~-----y-~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR  232 (408)
T COG0593         159 VKALRDNEMEKFKEK-----Y-SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSR  232 (408)
T ss_pred             HHHHHhhhHHHHHHh-----h-ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHH
Confidence            001111 11111110     2 356999999999864  4588888887754433 3677777553    2456899999


Q ss_pred             ---cceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhc
Q 020071          162 ---CAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVC  232 (331)
Q Consensus       162 ---~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~  232 (331)
                         +.++.+.||+.+....+|++.+...++.++++++.+++.....|+|.+...++.+.    .....||.+.+.+++
T Consensus       233 ~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L  310 (408)
T COG0593         233 LEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEIL  310 (408)
T ss_pred             HhceeEEeeCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHH
Confidence               46789999999999999999999999999999999999999999999999887653    344478877776654

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.64  E-value=5.8e-15  Score=136.29  Aligned_cols=175  Identities=19%  Similarity=0.214  Sum_probs=119.0

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHc-----------C-CCC-eEEEeCCCCccHHHHHHHHHHHhcCCC-----CC
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARD-----------G-NMP-NLILAGPPGTGKTTSILALAHELLGPN-----YR   76 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~   76 (331)
                      ..+.+.+.+|+++.|.+..++.++..+..           | ..| ++|||||||+|||++++++++.+....     ..
T Consensus       172 ~~~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~  251 (512)
T TIGR03689       172 VLEEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDK  251 (512)
T ss_pred             eeecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCc
Confidence            34566677999999999999988887642           2 223 399999999999999999999984331     12


Q ss_pred             CceEEeecCCCC------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH------------HHHHHHHHHHHh
Q 020071           77 EAVMELNASDDR------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG------------AQQALRRTMEIY  138 (331)
Q Consensus        77 ~~~~~~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~------------~~~~Ll~~le~~  138 (331)
                      ..++.+..++..      ....++..+..+.....   .+.+.++||||+|.+...            ..+.|+..|+..
T Consensus       252 ~~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~---~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl  328 (512)
T TIGR03689       252 SYFLNIKGPELLNKYVGETERQIRLIFQRAREKAS---DGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGV  328 (512)
T ss_pred             eeEEeccchhhcccccchHHHHHHHHHHHHHHHhh---cCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccc
Confidence            223333333221      11233444443333221   345779999999987321            135667777643


Q ss_pred             c--CCcEEEEeeCCCCCCChhhhc--ccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHH
Q 020071          139 S--NSTRFALACNVSSKIIEPIQS--RCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPE  193 (331)
Q Consensus       139 ~--~~~~~I~~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~  193 (331)
                      .  .++.+|.+||.+..+.+++++  |+. .+.|++|+.++..++++.++.. .+.++++
T Consensus       329 ~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~-~l~l~~~  387 (512)
T TIGR03689       329 ESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD-SLPLDAD  387 (512)
T ss_pred             ccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc-cCCchHH
Confidence            3  467888899999999999987  764 4899999999999999987653 3445433

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.64  E-value=7.8e-15  Score=144.02  Aligned_cols=170  Identities=19%  Similarity=0.237  Sum_probs=124.2

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      ...|+++.|.+.+++.|...+..           | ..|. +|||||||+|||++|+++++.+     +.+++.+.+++.
T Consensus       449 ~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~-----~~~fi~v~~~~l  523 (733)
T TIGR01243       449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES-----GANFIAVRGPEI  523 (733)
T ss_pred             ccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc-----CCCEEEEehHHH
Confidence            44799999999999998887652           2 2333 8999999999999999999998     677888876543


Q ss_pred             C------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH------------HHHHHHHHHHHH--hcCCcEEEEe
Q 020071           88 R------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA------------GAQQALRRTMEI--YSNSTRFALA  147 (331)
Q Consensus        88 ~------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~------------~~~~~Ll~~le~--~~~~~~~I~~  147 (331)
                      .      +...+++.+..+..       ..+.++||||+|.+..            ...+.|+..|+.  ...++.+|.+
T Consensus       524 ~~~~vGese~~i~~~f~~A~~-------~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~a  596 (733)
T TIGR01243       524 LSKWVGESEKAIREIFRKARQ-------AAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAA  596 (733)
T ss_pred             hhcccCcHHHHHHHHHHHHHh-------cCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEe
Confidence            1      12234444443332       3468999999998732            234667777763  4467888899


Q ss_pred             eCCCCCCChhhhc--ccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCH-HHHHHHHHhcCC
Q 020071          148 CNVSSKIIEPIQS--RCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVP-EGLEAIIFTADG  204 (331)
Q Consensus       148 ~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~-~~~~~l~~~~~g  204 (331)
                      ||.+..+.+++.+  ||. .+.+++|+.++..++++...++.  .+++ ..++.+++.+.|
T Consensus       597 Tn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~--~~~~~~~l~~la~~t~g  655 (733)
T TIGR01243       597 TNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSM--PLAEDVDLEELAEMTEG  655 (733)
T ss_pred             CCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCC--CCCccCCHHHHHHHcCC
Confidence            9999999999986  874 57999999999999987665433  3333 347888888766

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.64  E-value=7.7e-15  Score=145.13  Aligned_cols=199  Identities=17%  Similarity=0.197  Sum_probs=147.8

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEEeecCC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVMELNASD   86 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~   86 (331)
                      ..|++++.||..+++++|+++.+.++...+.....++++|+||||+|||++++.+++.+....     .+..++.++...
T Consensus       165 ~~~l~~~~r~~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~  244 (857)
T PRK10865        165 TIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA  244 (857)
T ss_pred             hhhHHHHHhcCCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh
Confidence            458899999999999999999999999999888877899999999999999999999875321     133455554433


Q ss_pred             CC----ChH----hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------HHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071           87 DR----GID----VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------GAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus        87 ~~----~~~----~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..    ...    .++..+.....      ..++.|+||||+|.+..        +.++.|...++.  ....+|.+|+.
T Consensus       245 l~ag~~~~g~~e~~lk~~~~~~~~------~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~--g~l~~IgaTt~  316 (857)
T PRK10865        245 LVAGAKYRGEFEERLKGVLNDLAK------QEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTL  316 (857)
T ss_pred             hhhccchhhhhHHHHHHHHHHHHH------cCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc--CCCeEEEcCCC
Confidence            21    112    23334433322      23467999999999853        357788888764  56788888776


Q ss_pred             CC-----CCChhhhcccceeeecCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcC------CCHHHHHHHHHH
Q 020071          151 SS-----KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE----EKVPYVPEGLEAIIFTAD------GDMRQALNNLQA  215 (331)
Q Consensus       151 ~~-----~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~------g~~r~~~~~l~~  215 (331)
                      .+     ...+++.+||+.+.+..|+.++...+++....+    .++.++++++...+..++      --+.+|+..++.
T Consensus       317 ~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~~~~e~~~~v~~~d~a~~~a~~ls~ry~~~~~~pdkAi~LiD~  396 (857)
T PRK10865        317 DEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDPAIVAAATLSHRYIADRQLPDKAIDLIDE  396 (857)
T ss_pred             HHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHhhhhccCCCCCcCHHHHHHHHHHhhccccCCCCChHHHHHHHH
Confidence            53     478999999999999999999999988776543    357788888877766653      357778888876


Q ss_pred             Hhh
Q 020071          216 TYS  218 (331)
Q Consensus       216 ~~~  218 (331)
                      ++.
T Consensus       397 aaa  399 (857)
T PRK10865        397 AAS  399 (857)
T ss_pred             Hhc
Confidence            653

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

Probab=99.62  E-value=1.6e-14  Score=139.96  Aligned_cols=199  Identities=14%  Similarity=0.148  Sum_probs=138.7

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC-----CCceEEeecCCC-
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY-----REAVMELNASDD-   87 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~~-   87 (331)
                      .+++.-+-..++.++|++..+..+...+.....++++|+||||+|||++|+.+++.+.....     +..++.++.... 
T Consensus       175 ~l~~~a~~g~~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~ll  254 (758)
T PRK11034        175 NLNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL  254 (758)
T ss_pred             hHHHHHHcCCCCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHh
Confidence            34455567788999999999999999998877777999999999999999999987643221     112233322111 


Q ss_pred             ---CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC---------HHHHHHHHHHHHHhcCCcEEEEeeCCCC---
Q 020071           88 ---RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT---------AGAQQALRRTMEIYSNSTRFALACNVSS---  152 (331)
Q Consensus        88 ---~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~---------~~~~~~Ll~~le~~~~~~~~I~~~~~~~---  152 (331)
                         ....++.+.++.......   ..+..++||||+|.+.         .+..+.|..++..  ...++|.+|+..+   
T Consensus       255 aG~~~~Ge~e~rl~~l~~~l~---~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~--g~i~vIgATt~~E~~~  329 (758)
T PRK11034        255 AGTKYRGDFEKRFKALLKQLE---QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTYQEFSN  329 (758)
T ss_pred             cccchhhhHHHHHHHHHHHHH---hcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC--CCeEEEecCChHHHHH
Confidence               011223333322222111   1235699999999872         2334456666653  4577777777542   


Q ss_pred             --CCChhhhcccceeeecCCCHHHHHHHHHHHHH----hcCCCCCHHHHHHHHHhcC------CCHHHHHHHHHHHh
Q 020071          153 --KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ----EEKVPYVPEGLEAIIFTAD------GDMRQALNNLQATY  217 (331)
Q Consensus       153 --~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~i~~~~~~~l~~~~~------g~~r~~~~~l~~~~  217 (331)
                        ...+++.+||+.+.+++|+.++...+|+....    .+++.++++++..++.++.      .-|.+++.+++.++
T Consensus       330 ~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea~  406 (758)
T PRK11034        330 IFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAG  406 (758)
T ss_pred             HhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHHH
Confidence              46899999999999999999999999987654    3578899999988887653      35789999998765

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

Probab=99.62  E-value=1.7e-14  Score=139.87  Aligned_cols=179  Identities=17%  Similarity=0.212  Sum_probs=126.6

Q ss_pred             ccccCHHHHHHHHHHHHcC--------CC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHH
Q 020071           26 DIVGNLDAVARLGIIARDG--------NM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNK   96 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~--------~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~   96 (331)
                      .++||++++..+...+...        ++ .+++|+||+|+|||.+|+.+++.+     +.+++.+++++......+...
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l-----~~~~i~id~se~~~~~~~~~L  533 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVSRL  533 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCCcEEeechhhcccccHHHH
Confidence            4899999999998888731        22 248999999999999999999998     456777776554221111111


Q ss_pred             ---------------HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCC
Q 020071           97 ---------------IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNV  150 (331)
Q Consensus        97 ---------------i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~  150 (331)
                                     +.....      ..++.|+++||+|+++++.++.|+++|++..           .++.||+++|.
T Consensus       534 iG~~~gyvg~~~~g~L~~~v~------~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~  607 (758)
T PRK11034        534 IGAPPGYVGFDQGGLLTDAVI------KHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNA  607 (758)
T ss_pred             cCCCCCcccccccchHHHHHH------hCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCc
Confidence                           111111      2346899999999999999999999998531           36678998872


Q ss_pred             C-------------------------CCCChhhhcccc-eeeecCCCHHHHHHHHHHHHH-------hcC--CCCCHHHH
Q 020071          151 S-------------------------SKIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQ-------EEK--VPYVPEGL  195 (331)
Q Consensus       151 ~-------------------------~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~-------~~~--~~i~~~~~  195 (331)
                      -                         ..+.|.+..|+. ++.|.|++.+++.+++...+.       ..|  +.++++++
T Consensus       608 g~~~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~~~~~~  687 (758)
T PRK11034        608 GVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEVSQEAR  687 (758)
T ss_pred             CHHHHhhcccCcccchhhHHHHHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCCceECHHHH
Confidence            1                         125588889985 789999999999888765543       334  45689999


Q ss_pred             HHHHHhcC---CCHHHHHHHHHH
Q 020071          196 EAIIFTAD---GDMRQALNNLQA  215 (331)
Q Consensus       196 ~~l~~~~~---g~~r~~~~~l~~  215 (331)
                      ++|++..-   ...|.+.+.++.
T Consensus       688 ~~l~~~~~~~~~GAR~l~r~i~~  710 (758)
T PRK11034        688 DWLAEKGYDRAMGARPMARVIQD  710 (758)
T ss_pred             HHHHHhCCCCCCCCchHHHHHHH
Confidence            99997642   234555555543

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.62  E-value=3e-14  Score=135.35  Aligned_cols=209  Identities=18%  Similarity=0.190  Sum_probs=146.0

Q ss_pred             hcCCCCCCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHH
Q 020071           18 KYRPTKVCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRN   95 (331)
Q Consensus        18 ~~~p~~~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~   95 (331)
                      +.+...|++++|++..++.+.+.++.-  ...+|+|+|++||||+++|+.++.....  ...+|+.+||.... .+.+..
T Consensus       189 ~~~~~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r--~~~pfv~i~c~~~~-~~~~~~  265 (534)
T TIGR01817       189 RRRSGKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPR--AKRPFVKVNCAALS-ETLLES  265 (534)
T ss_pred             ccccCccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCCC--CCCCeEEeecCCCC-HHHHHH
Confidence            455668999999999999888777653  2224999999999999999999987543  25689999998652 222222


Q ss_pred             HHHHHHhc---------ccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC----
Q 020071           96 KIKMFAQK---------KVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS----  151 (331)
Q Consensus        96 ~i~~~~~~---------~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~----  151 (331)
                      .+-.....         ...+....+++++|||++.|+...|..|++++++..           .++++|++++..    
T Consensus       266 ~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~l~~~  345 (534)
T TIGR01817       266 ELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEA  345 (534)
T ss_pred             HHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCCHHHH
Confidence            22100000         000113457899999999999999999999998632           247888887653    


Q ss_pred             ---CCCChhhhcccc--eeeecCCCH--HHHHHHHHHHHH----hcC--CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh
Q 020071          152 ---SKIIEPIQSRCA--IVRFSRLSD--EEILSRLMVVVQ----EEK--VPYVPEGLEAIIFTA-DGDMRQALNNLQATY  217 (331)
Q Consensus       152 ---~~l~~~l~sr~~--~i~~~~~~~--~~~~~~l~~~~~----~~~--~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~  217 (331)
                         ..+.+.+..|+.  .+.++|+.+  +++..++...+.    +.+  ..+++++++.|..+. .||+|++.+.++.++
T Consensus       346 ~~~~~f~~~L~~rl~~~~i~lPpLreR~eDi~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~~~WPGNvrEL~~v~~~a~  425 (534)
T TIGR01817       346 VAKGEFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPLTITPSAIRVLMSCKWPGNVRELENCLERTA  425 (534)
T ss_pred             HHcCCCCHHHHHHhcCCeeeCCCcccccccHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHH
Confidence               245566666754  467888873  555544444332    222  578999999999986 899999999998775


Q ss_pred             --hCCCccchhhhh
Q 020071          218 --SGFRFVNQENVF  229 (331)
Q Consensus       218 --~~~~~i~~~~v~  229 (331)
                        .....|+.+++.
T Consensus       426 ~~~~~~~I~~~~l~  439 (534)
T TIGR01817       426 TLSRSGTITRSDFS  439 (534)
T ss_pred             HhCCCCcccHHHCc
Confidence              344567777764

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.62  E-value=1.2e-14  Score=143.91  Aligned_cols=199  Identities=18%  Similarity=0.187  Sum_probs=147.0

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEEeecCCC-
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVMELNASDD-   87 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~~-   87 (331)
                      .++++-+...+++++|++..+..+...+.....+|++|+||||+|||++|+.+++.+....     .+..++.++.... 
T Consensus       168 ~l~~~a~~~~~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~  247 (821)
T CHL00095        168 NLTKEAIDGNLDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLL  247 (821)
T ss_pred             HHHHHHHcCCCCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHh
Confidence            4555667888999999999999999999988888899999999999999999999875321     1345666664322 


Q ss_pred             ---CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------HHHHHHHHHHHHhcCCcEEEEeeCCC-----
Q 020071           88 ---RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------GAQQALRRTMEIYSNSTRFALACNVS-----  151 (331)
Q Consensus        88 ---~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------~~~~~Ll~~le~~~~~~~~I~~~~~~-----  151 (331)
                         ....++.+.++.......   ..+..|+||||+|.+..        +..+.|...+..  ...++|.+|+..     
T Consensus       248 ag~~~~ge~e~rl~~i~~~~~---~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r--g~l~~IgaTt~~ey~~~  322 (821)
T CHL00095        248 AGTKYRGEFEERLKRIFDEIQ---ENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR--GELQCIGATTLDEYRKH  322 (821)
T ss_pred             ccCCCccHHHHHHHHHHHHHH---hcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC--CCcEEEEeCCHHHHHHH
Confidence               112234444444333221   23467999999987743        346677777764  567788887764     


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHH----hcCCCCCHHHHHHHHHhcCC------CHHHHHHHHHHHh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ----EEKVPYVPEGLEAIIFTADG------DMRQALNNLQATY  217 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~i~~~~~~~l~~~~~g------~~r~~~~~l~~~~  217 (331)
                      ....+.+.+|++.+.+.+++.++...+++....    ..++.++++++..++.++++      -|++++..++.++
T Consensus       323 ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdkaidlld~a~  398 (821)
T CHL00095        323 IEKDPALERRFQPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKAIDLLDEAG  398 (821)
T ss_pred             HhcCHHHHhcceEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchHHHHHHHHHH
Confidence            246789999999999999999998888776543    34677899999999988864      3889999998764

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.61  E-value=2.3e-14  Score=141.36  Aligned_cols=184  Identities=21%  Similarity=0.300  Sum_probs=134.8

Q ss_pred             CccccCHHHHHHHHHHHHc---C----CCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHH-
Q 020071           25 CDIVGNLDAVARLGIIARD---G----NMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVR-   94 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~---~----~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~-   94 (331)
                      ..++||+.++..+.+.+..   |    ..|  .++|+||+|+|||.+|+++++.+...  ...++.++++.......+. 
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~--~~~~~~~dmse~~~~~~~~~  643 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGG--EQNLITINMSEFQEAHTVSR  643 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCC--CcceEEEeHHHhhhhhhhcc
Confidence            3689999999988888753   1    223  27999999999999999999998643  2355666644321100000 


Q ss_pred             --------------HHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeC
Q 020071           95 --------------NKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACN  149 (331)
Q Consensus        95 --------------~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~  149 (331)
                                    ..+.....      ..++.||++||+++++++.++.|+.++++..           .++.||+|+|
T Consensus       644 l~g~~~gyvg~~~~g~L~~~v~------~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSN  717 (852)
T TIGR03345       644 LKGSPPGYVGYGEGGVLTEAVR------RKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSN  717 (852)
T ss_pred             ccCCCCCcccccccchHHHHHH------hCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCC
Confidence                          01111111      2346799999999999999999999999654           6788999887


Q ss_pred             CC-----------C------------------CCChhhhcccceeeecCCCHHHHHHHHHHHHHh-------c-C--CCC
Q 020071          150 VS-----------S------------------KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE-------E-K--VPY  190 (331)
Q Consensus       150 ~~-----------~------------------~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~-------~-~--~~i  190 (331)
                      -.           .                  .+.|.+.+|+.++.|.|++.+++.+++...+..       . +  +.+
T Consensus       718 lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEflnRi~iI~F~pLs~e~l~~Iv~~~L~~l~~rl~~~~gi~l~i  797 (852)
T TIGR03345       718 AGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLGRMTVIPYLPLDDDVLAAIVRLKLDRIARRLKENHGAELVY  797 (852)
T ss_pred             CchHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhcceeEEEeCCCCHHHHHHHHHHHHHHHHHHHHHhcCceEEE
Confidence            41           0                  256888899999999999999999998765542       1 4  467


Q ss_pred             CHHHHHHHHHhcCC---CHHHHHHHHHHH
Q 020071          191 VPEGLEAIIFTADG---DMRQALNNLQAT  216 (331)
Q Consensus       191 ~~~~~~~l~~~~~g---~~r~~~~~l~~~  216 (331)
                      ++++.++|++.+.+   ..|.+.+.++..
T Consensus       798 ~d~a~~~La~~g~~~~~GAR~L~r~Ie~~  826 (852)
T TIGR03345       798 SEALVEHIVARCTEVESGARNIDAILNQT  826 (852)
T ss_pred             CHHHHHHHHHHcCCCCCChHHHHHHHHHH
Confidence            99999999999876   789988888763

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.60  E-value=5.3e-14  Score=124.88  Aligned_cols=188  Identities=16%  Similarity=0.200  Sum_probs=131.0

Q ss_pred             cccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcc
Q 020071           27 IVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKK  104 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~  104 (331)
                      ++|++..++.+.+.+..-  ...+|+|+|++||||+++|++++.....  ...+|+.+||.... .+.+...+-......
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~r--~~~pfv~vnc~~~~-~~~l~~~lfG~~~g~   77 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKR--WQGPLVKLNCAALS-ENLLDSELFGHEAGA   77 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcCc--cCCCeEEEeCCCCC-hHHHHHHHhcccccc
Confidence            467777777766666542  1223999999999999999999986532  25689999998652 222222221101000


Q ss_pred             c---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CCCChh
Q 020071          105 V---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SKIIEP  157 (331)
Q Consensus       105 ~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~l~~~  157 (331)
                      +         .+.....++++|||++.|+.+.|..|++++++..           .++++|++++..       ..+.+.
T Consensus        78 ~~ga~~~~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~~l~~~~~~g~fr~d  157 (329)
T TIGR02974        78 FTGAQKRHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRAD  157 (329)
T ss_pred             ccCcccccCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechhhHHHHhhcCchHHH
Confidence            0         0123467899999999999999999999998532           457888888653       345567


Q ss_pred             hhccc--ceeeecCCCH--HHHHHHHHHH----HHhcC----CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh
Q 020071          158 IQSRC--AIVRFSRLSD--EEILSRLMVV----VQEEK----VPYVPEGLEAIIFTA-DGDMRQALNNLQATY  217 (331)
Q Consensus       158 l~sr~--~~i~~~~~~~--~~~~~~l~~~----~~~~~----~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~  217 (331)
                      +..|+  ..+.++|+.+  +++..++...    +.+.+    ..+++++++.|..+. .||+|++.+.++.++
T Consensus       158 L~~rl~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~ls~~a~~~L~~y~WPGNvrEL~n~i~~~~  230 (329)
T TIGR02974       158 LLDRLAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPGFTPQAREQLLEYHWPGNVRELKNVVERSV  230 (329)
T ss_pred             HHHHhcchhcCCCchhhhhhhHHHHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHhCCCCchHHHHHHHHHHHH
Confidence            77776  4578888884  5665554443    33333    368999999999988 899999999998775

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

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.60  E-value=4.1e-14  Score=140.16  Aligned_cols=182  Identities=19%  Similarity=0.250  Sum_probs=128.3

Q ss_pred             CccccCHHHHHHHHHHHHcC-------CCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH----
Q 020071           25 CDIVGNLDAVARLGIIARDG-------NMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID----   91 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~-------~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~----   91 (331)
                      +.++||++++..+...+...       ..|  +++|+||+|+|||++|+.+++.+.|..  .+++.++.+......    
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~--~~~~~~d~s~~~~~~~~~~  586 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSE--DAMIRLDMSEYMEKHTVSK  586 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCc--cceEEEEchhccccccHHH
Confidence            46899999999998887632       223  279999999999999999999998753  456666654431111    


Q ss_pred             ------------hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEee
Q 020071           92 ------------VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALAC  148 (331)
Q Consensus        92 ------------~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~  148 (331)
                                  ..........       ..++.||++||+|+++++.++.|++++++.           -.++.||+|+
T Consensus       587 l~g~~~gyvg~~~~~~l~~~~~-------~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Ts  659 (821)
T CHL00095        587 LIGSPPGYVGYNEGGQLTEAVR-------KKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTS  659 (821)
T ss_pred             hcCCCCcccCcCccchHHHHHH-------hCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeC
Confidence                        1111111111       234689999999999999999999999974           2578889987


Q ss_pred             CCCCC-------------------------------------CChhhhccc-ceeeecCCCHHHHHHHHHHHHHh-----
Q 020071          149 NVSSK-------------------------------------IIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQE-----  185 (331)
Q Consensus       149 ~~~~~-------------------------------------l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-----  185 (331)
                      |....                                     +.|.+.+|+ .++.|.|++.+++.+++...+++     
T Consensus       660 n~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l~~l~~rl  739 (821)
T CHL00095        660 NLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIMLKNLFKRL  739 (821)
T ss_pred             CcchHHHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHHHHHHHHH
Confidence            74210                                     235678888 78899999999999998766542     


Q ss_pred             --cC--CCCCHHHHHHHHHhcC---CCHHHHHHHHHH
Q 020071          186 --EK--VPYVPEGLEAIIFTAD---GDMRQALNNLQA  215 (331)
Q Consensus       186 --~~--~~i~~~~~~~l~~~~~---g~~r~~~~~l~~  215 (331)
                        .+  +.+++++.++|++..-   .-.|.+.+.++.
T Consensus       740 ~~~~i~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~  776 (821)
T CHL00095        740 NEQGIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMR  776 (821)
T ss_pred             HHCCcEEEECHHHHHHHHHhcCCCCCChhhHHHHHHH
Confidence              22  4678999999998641   234555555543

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

Probab=99.60  E-value=5.8e-14  Score=122.38  Aligned_cols=151  Identities=14%  Similarity=0.164  Sum_probs=112.1

Q ss_pred             CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC------ChHhHHHHHHHHHhcccCCCCCCceEEEE
Q 020071           45 NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR------GIDVVRNKIKMFAQKKVTLPPGKHKVVVL  117 (331)
Q Consensus        45 ~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~vvii  117 (331)
                      +.|. ++||||||+|||.+|+++++++     +.+++.+++++..      +...+++....+....-  ..+...+|||
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el-----g~~~i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~a~--~~~aPcVLFI  218 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM-----GIEPIVMSAGELESENAGEPGKLIRQRYREAADIIK--KKGKMSCLFI  218 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc-----CCCeEEEEHHHhhcCcCCcHHHHHHHHHHHHHHHhh--ccCCCeEEEE
Confidence            4444 7999999999999999999999     7778888876542      23466776666554320  0345789999


Q ss_pred             eCCCCCCHH-----------H-HHHHHHHHHHh--------------cCCcEEEEeeCCCCCCChhhhc--ccceeeecC
Q 020071          118 DEADSMTAG-----------A-QQALRRTMEIY--------------SNSTRFALACNVSSKIIEPIQS--RCAIVRFSR  169 (331)
Q Consensus       118 de~d~l~~~-----------~-~~~Ll~~le~~--------------~~~~~~I~~~~~~~~l~~~l~s--r~~~i~~~~  169 (331)
                      ||+|.+...           . ...|+..++.|              ...+.+|.++|+++.|.+++++  |+..+ +..
T Consensus       219 DEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~-i~l  297 (413)
T PLN00020        219 NDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKF-YWA  297 (413)
T ss_pred             ehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCce-eCC
Confidence            999976321           1 24566766643              3567889999999999999998  77654 457


Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC
Q 020071          170 LSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGD  205 (331)
Q Consensus       170 ~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~  205 (331)
                      |+.++..++++.++++.+  ++...+..|+....|-
T Consensus       298 Pd~e~R~eIL~~~~r~~~--l~~~dv~~Lv~~f~gq  331 (413)
T PLN00020        298 PTREDRIGVVHGIFRDDG--VSREDVVKLVDTFPGQ  331 (413)
T ss_pred             CCHHHHHHHHHHHhccCC--CCHHHHHHHHHcCCCC
Confidence            999999999998887765  5678888888887664

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.60  E-value=5.1e-14  Score=124.16  Aligned_cols=213  Identities=17%  Similarity=0.148  Sum_probs=131.0

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC-----------------------
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYR-----------------------   76 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~-----------------------   76 (331)
                      .|..|.+++||++++..+.-.+-.....|+||+|++|+|||++|+.+++.+.+....                       
T Consensus         3 ~~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~~~~~~~~~   82 (334)
T PRK13407          3 KPFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVSSTT   82 (334)
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCcccccccCCc
Confidence            478899999999999987765543334579999999999999999999998541100                       


Q ss_pred             -----CceEEeecC--C--CCChHhHHHHHHHH--HhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc------
Q 020071           77 -----EAVMELNAS--D--DRGIDVVRNKIKMF--AQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS------  139 (331)
Q Consensus        77 -----~~~~~~~~~--~--~~~~~~i~~~i~~~--~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~------  139 (331)
                           .+++.+...  .  ..|.-.+...+..-  ...+-.+....+.++++||++.++.+.++.|+..|++..      
T Consensus        83 ~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl~~~~q~~Lle~mee~~v~v~r~  162 (334)
T PRK13407         83 MIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLLEDHIVDLLLDVAQSGENVVERE  162 (334)
T ss_pred             ccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhCCHHHHHHHHHHHHcCCeEEEEC
Confidence                 001111000  0  01111122221100  000000112456799999999999999999999998532      


Q ss_pred             -------CCcEEEEeeCCC-CCCChhhhcccc-eeeecCCCH-HHHHHHHHHHHH-------------------------
Q 020071          140 -------NSTRFALACNVS-SKIIEPIQSRCA-IVRFSRLSD-EEILSRLMVVVQ-------------------------  184 (331)
Q Consensus       140 -------~~~~~I~~~~~~-~~l~~~l~sr~~-~i~~~~~~~-~~~~~~l~~~~~-------------------------  184 (331)
                             ..+.+|.++|.. ..+.+.+..|+. .+.+.+++. ++..+++.....                         
T Consensus       163 G~~~~~p~rfiviAt~NP~e~~l~~aLldRF~~~v~v~~~~~~~e~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  242 (334)
T PRK13407        163 GLSIRHPARFVLVGSGNPEEGELRPQLLDRFGLSVEVRSPRDVETRVEVIRRRDAYDADHDAFMAKWGAEDMQLRGRILG  242 (334)
T ss_pred             CeEEecCCCEEEEecCCcccCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHhhcccccchhhhccccccccCCHHHHHH
Confidence                   334444445543 368889999975 356666655 554445443211                         


Q ss_pred             ----hcCCCCCHHHHHHHHHhc---C-CCHHHHHHHHHHH-----hhCCCccchhhhhhhc
Q 020071          185 ----EEKVPYVPEGLEAIIFTA---D-GDMRQALNNLQAT-----YSGFRFVNQENVFKVC  232 (331)
Q Consensus       185 ----~~~~~i~~~~~~~l~~~~---~-g~~r~~~~~l~~~-----~~~~~~i~~~~v~~~~  232 (331)
                          -..+.++++.++++++.+   + ..+|..+..+..+     ..+...|+.+++..+.
T Consensus       243 a~~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~  303 (334)
T PRK13407        243 ARARLPQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVA  303 (334)
T ss_pred             HHHhcCCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHH
Confidence                124667888888877654   2 3566666655433     2677789999887643

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

Probab=99.59  E-value=4.7e-13  Score=121.22  Aligned_cols=205  Identities=20%  Similarity=0.233  Sum_probs=146.5

Q ss_pred             CCCCccccCHHHHHHHHHHHHcCCC--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHH
Q 020071           22 TKVCDIVGNLDAVARLGIIARDGNM--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKM   99 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~   99 (331)
                      ..+.+++|++..++.+.+.+.+-..  .+|||+|++||||..+|+++++.-...  +.+|+.+||... ..+.+...+-.
T Consensus       138 ~~~~~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElvAr~IH~~S~R~--~~PFVavNcaAi-p~~l~ESELFG  214 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELVARAIHQASPRA--KGPFIAVNCAAI-PENLLESELFG  214 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHhhCccc--CCCceeeecccC-CHHHHHHHhhc
Confidence            3677899999999999888876422  239999999999999999999976433  568999999875 33444443332


Q ss_pred             HHhcccC---------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCC-------C
Q 020071          100 FAQKKVT---------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVS-------S  152 (331)
Q Consensus       100 ~~~~~~~---------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~-------~  152 (331)
                      .....|+         +..++++++|+||+..|+.+.|..|++++++.           +.++++|.+|+..       .
T Consensus       215 hekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~vdvRiIaaT~~dL~~~v~~G  294 (464)
T COG2204         215 HEKGAFTGAITRRIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKVDVRIIAATNRDLEEEVAAG  294 (464)
T ss_pred             ccccCcCCcccccCcceeEcCCceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccceeeEEEeecCcCHHHHHHcC
Confidence            2222221         11356889999999999999999999999852           2477899888763       3


Q ss_pred             CCChhhhccccee--eecCCCH--HHH----HHHHHHHHHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--h
Q 020071          153 KIIEPIQSRCAIV--RFSRLSD--EEI----LSRLMVVVQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATY--S  218 (331)
Q Consensus       153 ~l~~~l~sr~~~i--~~~~~~~--~~~----~~~l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~  218 (331)
                      ++-+.|--|..++  +++|+.+  +++    ..++++.+++.|   ..+++++++.|..+. .||+|++.|.++.++  .
T Consensus       295 ~FReDLyyRLnV~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNVREL~N~ver~~il~  374 (464)
T COG2204         295 RFREDLYYRLNVVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEALAALLAYDWPGNVRELENVVERAVILS  374 (464)
T ss_pred             CcHHHHHhhhccceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCChHHHHHHHHHHHHHhcC
Confidence            5556666776654  5556654  333    344455555444   468999999988876 799999999999875  3


Q ss_pred             CCCccchhhhh
Q 020071          219 GFRFVNQENVF  229 (331)
Q Consensus       219 ~~~~i~~~~v~  229 (331)
                      ....|+.+++-
T Consensus       375 ~~~~i~~~~l~  385 (464)
T COG2204         375 EGPEIEVEDLP  385 (464)
T ss_pred             Cccccchhhcc
Confidence            44456665543

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

Probab=99.58  E-value=1.1e-13  Score=135.67  Aligned_cols=179  Identities=20%  Similarity=0.247  Sum_probs=126.8

Q ss_pred             CccccCHHHHHHHHHHHHcC--------CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC-------
Q 020071           25 CDIVGNLDAVARLGIIARDG--------NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR-------   88 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~--------~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-------   88 (331)
                      ..++||+++++.+.+.+...        ++. +++|+||+|+|||.+|+.+++.+     ..+++.++++...       
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~~~~  528 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHTVSR  528 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-----cCCeEEEeCchhhhcccHHH
Confidence            35899999999988887642        222 37999999999999999999998     3445666554321       


Q ss_pred             ---------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEee
Q 020071           89 ---------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALAC  148 (331)
Q Consensus        89 ---------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~  148 (331)
                               +.+......+...       ..++.||++||+|+++++.++.|++++++.           -.++.||+++
T Consensus       529 lig~~~gyvg~~~~~~l~~~~~-------~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Ts  601 (731)
T TIGR02639       529 LIGAPPGYVGFEQGGLLTEAVR-------KHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTS  601 (731)
T ss_pred             HhcCCCCCcccchhhHHHHHHH-------hCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECC
Confidence                     1111111111111       234689999999999999999999999863           1356788887


Q ss_pred             CCCC-------------------------CCChhhhccc-ceeeecCCCHHHHHHHHHHHHHh-------c--CCCCCHH
Q 020071          149 NVSS-------------------------KIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQE-------E--KVPYVPE  193 (331)
Q Consensus       149 ~~~~-------------------------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~--~~~i~~~  193 (331)
                      |...                         .+.|.+.+|+ .++.|.|++.+++.+++...+++       .  .+.++++
T Consensus       602 n~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~~l~i~~~  681 (731)
T TIGR02639       602 NAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNIKLELTDD  681 (731)
T ss_pred             CcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEeCHH
Confidence            6521                         2467788888 47899999999999998877652       2  2567899


Q ss_pred             HHHHHHHhc---CCCHHHHHHHHHH
Q 020071          194 GLEAIIFTA---DGDMRQALNNLQA  215 (331)
Q Consensus       194 ~~~~l~~~~---~g~~r~~~~~l~~  215 (331)
                      +.++|++..   ....|.+.+.++.
T Consensus       682 a~~~La~~~~~~~~GaR~l~r~i~~  706 (731)
T TIGR02639       682 AKKYLAEKGYDEEFGARPLARVIQE  706 (731)
T ss_pred             HHHHHHHhCCCcccCchHHHHHHHH
Confidence            999999864   2345555555554

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

Probab=99.58  E-value=5.9e-14  Score=125.87  Aligned_cols=195  Identities=21%  Similarity=0.228  Sum_probs=134.3

Q ss_pred             CCCCCCccccCHHHHHHHHHHHH-----------cCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           20 RPTKVCDIVGNLDAVARLGIIAR-----------DGNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~-----------~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      .-.+|+|+-|-++++++|...++           .|++|. +||+||||+|||.+|++++-+.     +.+|+...+++.
T Consensus       299 ~nv~F~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA-----~VPFF~~sGSEF  373 (752)
T KOG0734|consen  299 KNVTFEDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA-----GVPFFYASGSEF  373 (752)
T ss_pred             cccccccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc-----CCCeEeccccch
Confidence            34579999999999998877764           367777 9999999999999999999988     778887776654


Q ss_pred             ------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHH--hcCCcEEEEee
Q 020071           88 ------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEI--YSNSTRFALAC  148 (331)
Q Consensus        88 ------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~--~~~~~~~I~~~  148 (331)
                            .|...+++++..+....       +.||||||+|....           ...|.|+-=|+.  ....+++|.+|
T Consensus       374 dEm~VGvGArRVRdLF~aAk~~A-------PcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIvigAT  446 (752)
T KOG0734|consen  374 DEMFVGVGARRVRDLFAAAKARA-------PCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGAT  446 (752)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcC-------CeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEEEecc
Confidence                  23456777776655433       67999999998742           234455555553  34567788888


Q ss_pred             CCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHhcC----CCHHHHHHHHH--HHh
Q 020071          149 NVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEK--VPYVPEGLEAIIFTAD----GDMRQALNNLQ--ATY  217 (331)
Q Consensus       149 ~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~--~~i~~~~~~~l~~~~~----g~~r~~~~~l~--~~~  217 (331)
                      |-++.+.+++.+  |+ ..+..+.|+-.-..++|.....+--  -.+|+   ..|++=+.    -|+..++|...  .+.
T Consensus       447 Nfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~~~VD~---~iiARGT~GFsGAdLaNlVNqAAlkAa~  523 (752)
T KOG0734|consen  447 NFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKIPLDEDVDP---KIIARGTPGFSGADLANLVNQAALKAAV  523 (752)
T ss_pred             CChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcCCcccCCCH---hHhccCCCCCchHHHHHHHHHHHHHHHh
Confidence            999999999977  45 3468888888778888877765422  12333   44555443    35555555542  222


Q ss_pred             hCCCccchhhhh
Q 020071          218 SGFRFVNQENVF  229 (331)
Q Consensus       218 ~~~~~i~~~~v~  229 (331)
                      .+...++..+++
T Consensus       524 dga~~VtM~~LE  535 (752)
T KOG0734|consen  524 DGAEMVTMKHLE  535 (752)
T ss_pred             cCcccccHHHHh
Confidence            455556666554

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.58  E-value=1.7e-13  Score=135.75  Aligned_cols=185  Identities=19%  Similarity=0.253  Sum_probs=130.3

Q ss_pred             CCCccccCHHHHHHHHHHHHcC-------CCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH
Q 020071           23 KVCDIVGNLDAVARLGIIARDG-------NMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV   93 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~-------~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i   93 (331)
                      .+..++||+.++..+...+...       ..|  +++|+||+|+|||++|+.+++.+.+.  ..+++.++++........
T Consensus       566 l~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~--~~~~i~id~se~~~~~~~  643 (857)
T PRK10865        566 LHHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDS--DDAMVRIDMSEFMEKHSV  643 (857)
T ss_pred             hCCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcC--CCcEEEEEhHHhhhhhhH
Confidence            3557999999999888887642       112  38999999999999999999988654  335677776543211111


Q ss_pred             HHH---------------HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEe
Q 020071           94 RNK---------------IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALA  147 (331)
Q Consensus        94 ~~~---------------i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~  147 (331)
                      ...               +.....      ..++.|++|||++.+++..++.|++++++..           .++++|++
T Consensus       644 ~~LiG~~pgy~g~~~~g~l~~~v~------~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~T  717 (857)
T PRK10865        644 SRLVGAPPGYVGYEEGGYLTEAVR------RRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMT  717 (857)
T ss_pred             HHHhCCCCcccccchhHHHHHHHH------hCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEe
Confidence            111               111110      2245799999999999999999999998641           34568888


Q ss_pred             eCCC-------------------------CCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHh-------cC--CCCCH
Q 020071          148 CNVS-------------------------SKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQE-------EK--VPYVP  192 (331)
Q Consensus       148 ~~~~-------------------------~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~~--~~i~~  192 (331)
                      ||..                         ..+.|.+.+|+ .++.|.|++.+++..++...+.+       .+  +.+++
T Consensus       718 SN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~~gi~l~is~  797 (857)
T PRK10865        718 SNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEERGYEIHISD  797 (857)
T ss_pred             CCcchHHHHHhccccchHHHHHHHHHHHcccccHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCcCcCCH
Confidence            8752                         12457888998 78899999999998887665543       23  45799


Q ss_pred             HHHHHHHHhcC---CCHHHHHHHHHH
Q 020071          193 EGLEAIIFTAD---GDMRQALNNLQA  215 (331)
Q Consensus       193 ~~~~~l~~~~~---g~~r~~~~~l~~  215 (331)
                      +++++|++..-   ...|.+.+.++.
T Consensus       798 ~al~~L~~~gy~~~~GARpL~r~I~~  823 (857)
T PRK10865        798 EALKLLSENGYDPVYGARPLKRAIQQ  823 (857)
T ss_pred             HHHHHHHHcCCCccCChHHHHHHHHH
Confidence            99999998652   245666666654

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

Probab=99.58  E-value=1.9e-13  Score=114.30  Aligned_cols=119  Identities=21%  Similarity=0.214  Sum_probs=100.6

Q ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC-------------CCCCChhhhcccceeeecCCCHHHHHHH
Q 020071          112 HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV-------------SSKIIEPIQSRCAIVRFSRLSDEEILSR  178 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~-------------~~~l~~~l~sr~~~i~~~~~~~~~~~~~  178 (331)
                      +.|+||||+|.|.-+....|.+.+|.|-. -.+||++|.             +..+++.+..|..+++..++++++++++
T Consensus       297 PGVLFIDEVhMLDiEcFTyL~kalES~ia-PivifAsNrG~~~irGt~d~~sPhGip~dllDRl~Iirt~~y~~~e~r~I  375 (456)
T KOG1942|consen  297 PGVLFIDEVHMLDIECFTYLHKALESPIA-PIVIFASNRGMCTIRGTEDILSPHGIPPDLLDRLLIIRTLPYDEEEIRQI  375 (456)
T ss_pred             CcceEeeehhhhhhHHHHHHHHHhcCCCC-ceEEEecCCcceeecCCcCCCCCCCCCHHHhhheeEEeeccCCHHHHHHH
Confidence            67999999999999999999999997654 346777765             4578899999999999999999999999


Q ss_pred             HHHHHHhcCCCCCHHHHHHHHHhc-CCCHHHHHHHHHH---Hh--hCCCccchhhhhhh
Q 020071          179 LMVVVQEEKVPYVPEGLEAIIFTA-DGDMRQALNNLQA---TY--SGFRFVNQENVFKV  231 (331)
Q Consensus       179 l~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~~~~~l~~---~~--~~~~~i~~~~v~~~  231 (331)
                      ++.+++.+++.++++++..++... ..++|.+++++--   ++  .++..|..+++.++
T Consensus       376 i~~Ra~~E~l~~~e~a~~~l~~~gt~tsLRy~vqLl~p~~~~ak~~g~~~i~v~dvee~  434 (456)
T KOG1942|consen  376 IKIRAQVEGLQVEEEALDLLAEIGTSTSLRYAVQLLTPASILAKTNGRKEISVEDVEEV  434 (456)
T ss_pred             HHHHHhhhcceecHHHHHHHHhhccchhHHHHHHhcCHHHHHHHHcCCceeecccHHHH
Confidence            999999999999999999999875 4689999988852   22  45667888888663

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.57  E-value=1.5e-13  Score=136.57  Aligned_cols=184  Identities=20%  Similarity=0.235  Sum_probs=132.9

Q ss_pred             CccccCHHHHHHHHHHHHcC--------CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHH
Q 020071           25 CDIVGNLDAVARLGIIARDG--------NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRN   95 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~--------~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~   95 (331)
                      ..++||+.++..+...+...        ++. .++|+||+|+|||++|+.+++.+.+.  ..+++.++++..........
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~--~~~~i~~d~s~~~~~~~~~~  642 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD--EDAMVRIDMSEYMEKHSVAR  642 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC--CCcEEEEechhhcccchHHH
Confidence            46899999999998888652        122 38999999999999999999998765  34667777654322111111


Q ss_pred             H---------------HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeC
Q 020071           96 K---------------IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACN  149 (331)
Q Consensus        96 ~---------------i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~  149 (331)
                      .               +.....      ..++.||++||+++++++.++.|++++++..           .++++|++||
T Consensus       643 l~g~~~g~~g~~~~g~l~~~v~------~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn  716 (852)
T TIGR03346       643 LIGAPPGYVGYEEGGQLTEAVR------RKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSN  716 (852)
T ss_pred             hcCCCCCccCcccccHHHHHHH------cCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCC
Confidence            1               111111      2345799999999999999999999998652           4667888887


Q ss_pred             CCC-------------------------CCChhhhccc-ceeeecCCCHHHHHHHHHHHHH-------hc--CCCCCHHH
Q 020071          150 VSS-------------------------KIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQ-------EE--KVPYVPEG  194 (331)
Q Consensus       150 ~~~-------------------------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~-------~~--~~~i~~~~  194 (331)
                      ...                         .+.|.+..|+ .++.|.|++.+++.+++.....       ..  .+.+++++
T Consensus       717 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~~~l~i~~~a  796 (852)
T TIGR03346       717 LGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERKITLELSDAA  796 (852)
T ss_pred             cchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhcCcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCCCeecCCHHH
Confidence            621                         1335666777 5789999999998888765543       22  25689999


Q ss_pred             HHHHHHhc---CCCHHHHHHHHHHH
Q 020071          195 LEAIIFTA---DGDMRQALNNLQAT  216 (331)
Q Consensus       195 ~~~l~~~~---~g~~r~~~~~l~~~  216 (331)
                      .++|++..   .++.|.+.+.++..
T Consensus       797 ~~~L~~~~~~~~~gaR~L~~~i~~~  821 (852)
T TIGR03346       797 LDFLAEAGYDPVYGARPLKRAIQRE  821 (852)
T ss_pred             HHHHHHhCCCCCCCchhHHHHHHHH
Confidence            99999874   47889888888764

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.

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

Probab=99.57  E-value=1.7e-13  Score=129.60  Aligned_cols=200  Identities=21%  Similarity=0.220  Sum_probs=140.7

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc-----------CCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD-----------GNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-   87 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-   87 (331)
                      +..|.|+.|.++++.+|...++-           -++|. +||+||||||||.+|+++|.+.     +.+|+.+++++. 
T Consensus       307 ~V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-----gVPF~svSGSEFv  381 (774)
T KOG0731|consen  307 GVKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----GVPFFSVSGSEFV  381 (774)
T ss_pred             CCccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-----CCceeeechHHHH
Confidence            35899999999999988777642           35666 9999999999999999999998     889999888764 


Q ss_pred             -----CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH------------HH---HHHHHHHHHH--hcCCcEEE
Q 020071           88 -----RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA------------GA---QQALRRTMEI--YSNSTRFA  145 (331)
Q Consensus        88 -----~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~------------~~---~~~Ll~~le~--~~~~~~~I  145 (331)
                           .+...++++......       .-+.+|+|||+|....            +.   .|.|+-=|+.  ....++++
T Consensus       382 E~~~g~~asrvr~lf~~ar~-------~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~  454 (774)
T KOG0731|consen  382 EMFVGVGASRVRDLFPLARK-------NAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVL  454 (774)
T ss_pred             HHhcccchHHHHHHHHHhhc-------cCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEE
Confidence                 123345555544332       2367999999987632            22   3444444442  33567778


Q ss_pred             EeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHH-HHHH---h-
Q 020071          146 LACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNN-LQAT---Y-  217 (331)
Q Consensus       146 ~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~-l~~~---~-  217 (331)
                      .+||.+.-+.+++.+  |+ ..+....|+.....++++-.+++.....++..+..++.++.|..+.-+.. +..+   + 
T Consensus       455 a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa~~a~  534 (774)
T KOG0731|consen  455 AATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAALLAA  534 (774)
T ss_pred             eccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHHHHHH
Confidence            888989999999987  43 45789999999999999888776666545666666888887754443332 3222   2 


Q ss_pred             -hCCCccchhhhhhhc
Q 020071          218 -SGFRFVNQENVFKVC  232 (331)
Q Consensus       218 -~~~~~i~~~~v~~~~  232 (331)
                       .+...|+..++..++
T Consensus       535 r~~~~~i~~~~~~~a~  550 (774)
T KOG0731|consen  535 RKGLREIGTKDLEYAI  550 (774)
T ss_pred             HhccCccchhhHHHHH
Confidence             445567766665543

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.57  E-value=3e-13  Score=120.21  Aligned_cols=192  Identities=15%  Similarity=0.164  Sum_probs=134.8

Q ss_pred             CCCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           23 KVCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      .+++++|.+..+..+.+.+..-  ...+|+|+|++|+||+++|+.++.....  ...+|+.++|.... .+.+...+-..
T Consensus         4 ~~~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r--~~~pfv~v~c~~~~-~~~~~~~lfg~   80 (326)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSR--WQGPFISLNCAALN-ENLLDSELFGH   80 (326)
T ss_pred             ccCccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhCCc--cCCCeEEEeCCCCC-HHHHHHHHccc
Confidence            5788999999988887776652  2224999999999999999999975432  25689999998752 23333322110


Q ss_pred             Hhc---------ccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CC
Q 020071          101 AQK---------KVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SK  153 (331)
Q Consensus       101 ~~~---------~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~  153 (331)
                      ...         ...+.....++++|||++.|+...|..|++++++..           .++++|++++..       ..
T Consensus        81 ~~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~l~~l~~~g~  160 (326)
T PRK11608         81 EAGAFTGAQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGK  160 (326)
T ss_pred             cccccCCcccccCCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchhHHHHHHcCC
Confidence            000         001123457899999999999999999999998522           257888887652       34


Q ss_pred             CChhhhccc--ceeeecCCCH--HHHHHHHHH----HHHhcC----CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh
Q 020071          154 IIEPIQSRC--AIVRFSRLSD--EEILSRLMV----VVQEEK----VPYVPEGLEAIIFTA-DGDMRQALNNLQATY  217 (331)
Q Consensus       154 l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~----~~~~~~----~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~  217 (331)
                      +.+.+..|+  ..+.++|+.+  +++..++..    .+.+.+    ..+++++++.|..+. .||+|++.+.++.++
T Consensus       161 f~~dL~~~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~vl~~a~  237 (326)
T PRK11608        161 FRADLLDRLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNYRWPGNIRELKNVVERSV  237 (326)
T ss_pred             chHHHHHhcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHH
Confidence            557777775  4578888876  455444433    344433    358999999999876 799999999998875

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.56  E-value=2.3e-13  Score=127.28  Aligned_cols=207  Identities=14%  Similarity=0.165  Sum_probs=141.9

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc--CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHH
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD--GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIK   98 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~   98 (331)
                      ...|++++|.+..++.+.+.+..  ....+|+|+|++||||+.+|+.++.....  ...+|+.+||.... ...+...+-
T Consensus       208 ~~~f~~iiG~S~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~S~r--~~~pfv~inC~~l~-e~lleseLF  284 (526)
T TIGR02329       208 RYRLDDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQLSGR--RDFPFVAINCGAIA-ESLLEAELF  284 (526)
T ss_pred             ccchhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHHHHhcCc--CCCCEEEeccccCC-hhHHHHHhc
Confidence            35688999999999988888764  22234999999999999999999986432  35689999998752 222332221


Q ss_pred             HHHhcccC----------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC------
Q 020071           99 MFAQKKVT----------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS------  151 (331)
Q Consensus        99 ~~~~~~~~----------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~------  151 (331)
                      ......++          +.....+.++|||++.|+...|..|++++++..           .++++|++++..      
T Consensus       285 G~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~~l~~~v~  364 (526)
T TIGR02329       285 GYEEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQ  364 (526)
T ss_pred             CCcccccccccccccccchhhcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCCCHHHHhh
Confidence            11111110          112457899999999999999999999998532           356888887653      


Q ss_pred             -CCCChhhhccc--ceeeecCCCH--HHHHHHH----HHHHHhcCCCCCHHHHHH-------HHHhc-CCCHHHHHHHHH
Q 020071          152 -SKIIEPIQSRC--AIVRFSRLSD--EEILSRL----MVVVQEEKVPYVPEGLEA-------IIFTA-DGDMRQALNNLQ  214 (331)
Q Consensus       152 -~~l~~~l~sr~--~~i~~~~~~~--~~~~~~l----~~~~~~~~~~i~~~~~~~-------l~~~~-~g~~r~~~~~l~  214 (331)
                       ..+.+.+-.|.  ..+.++|+.+  +++..++    .+.+...++.+++++++.       |..+. .||+|++.+.++
T Consensus       365 ~g~fr~dL~~rL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~~~~~L~~y~WPGNvrEL~nvie  444 (526)
T TIGR02329       365 QGRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQAAAALRLPDSEAAAQVLAGVADPLQRYPWPGNVRELRNLVE  444 (526)
T ss_pred             hcchhHHHHHhcCCcEEeCCCchhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHHhHHHHHHHHhCCCCchHHHHHHHHH
Confidence             13334444553  5678888886  4554444    443444567789998887       66654 799999999998


Q ss_pred             HHhh-----CCCccchhhhhh
Q 020071          215 ATYS-----GFRFVNQENVFK  230 (331)
Q Consensus       215 ~~~~-----~~~~i~~~~v~~  230 (331)
                      .++.     ....|+.+++..
T Consensus       445 r~~i~~~~~~~~~I~~~~l~~  465 (526)
T TIGR02329       445 RLALELSAMPAGALTPDVLRA  465 (526)
T ss_pred             HHHHhcccCCCCccCHHHhhh
Confidence            8753     234677776543

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.

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

Probab=99.56  E-value=3.8e-13  Score=122.52  Aligned_cols=184  Identities=19%  Similarity=0.248  Sum_probs=129.2

Q ss_pred             CCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           22 TKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      .+|+|+=+.+++..+|..++-.           | ..|. +|+|||||||||.+|+++|++.     +.+|+.+.+++..
T Consensus       508 VtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEa-----g~NFisVKGPELl  582 (802)
T KOG0733|consen  508 VTWDDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEA-----GANFISVKGPELL  582 (802)
T ss_pred             CChhhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhc-----cCceEeecCHHHH
Confidence            3788888899998888777643           2 2344 9999999999999999999998     8899988876542


Q ss_pred             Ch--HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHHh--cCCcEEEEeeCCCCC
Q 020071           89 GI--DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEIY--SNSTRFALACNVSSK  153 (331)
Q Consensus        89 ~~--~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~~--~~~~~~I~~~~~~~~  153 (331)
                      +.  ..-...+....+..-   .+-+.|||+||+|.|.+           ...|.|+-=|+..  ..++.+|.+||.+..
T Consensus       583 NkYVGESErAVR~vFqRAR---~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDi  659 (802)
T KOG0733|consen  583 NKYVGESERAVRQVFQRAR---ASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDI  659 (802)
T ss_pred             HHHhhhHHHHHHHHHHHhh---cCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcc
Confidence            21  122222222222221   33478999999999843           3456666666633  346778888999999


Q ss_pred             CChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHh------cCCCHHHHHHHH
Q 020071          154 IIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPE-GLEAIIFT------ADGDMRQALNNL  213 (331)
Q Consensus       154 l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~------~~g~~r~~~~~l  213 (331)
                      +.|++.+  |+ ..+.+.+|+.++..++|+...+..+..++++ .++.|++.      +|-|+-.++...
T Consensus       660 IDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLvreA  729 (802)
T KOG0733|consen  660 IDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALVREA  729 (802)
T ss_pred             cchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHHHHH
Confidence            9999987  43 4568888999999999999888655566554 36667654      344665555544

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.55  E-value=1.7e-13  Score=131.90  Aligned_cols=204  Identities=20%  Similarity=0.216  Sum_probs=140.3

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      |........|+++.|.+..+..+...+.-           +..| +++|+||+|+|||++++.+++.+     +.+++.+
T Consensus       142 ~~~~~~~~~~~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~-----~~~f~~i  216 (644)
T PRK10733        142 LTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTI  216 (644)
T ss_pred             cCchhhhCcHHHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc-----CCCEEEE
Confidence            33344456889999999888877665532           2233 49999999999999999999988     6678877


Q ss_pred             ecCCC------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHh--cC
Q 020071           83 NASDD------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIY--SN  140 (331)
Q Consensus        83 ~~~~~------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~--~~  140 (331)
                      ++.+.      .+...+++.+....       ...+.||||||+|.+..              ...+.|+.-|+..  ..
T Consensus       217 s~~~~~~~~~g~~~~~~~~~f~~a~-------~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~  289 (644)
T PRK10733        217 SGSDFVEMFVGVGASRVRDMFEQAK-------KAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNE  289 (644)
T ss_pred             ehHHhHHhhhcccHHHHHHHHHHHH-------hcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCC
Confidence            76542      12234444444432       22467999999998832              1235555555543  34


Q ss_pred             CcEEEEeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC----CHHHHHHHH
Q 020071          141 STRFALACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG----DMRQALNNL  213 (331)
Q Consensus       141 ~~~~I~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g----~~r~~~~~l  213 (331)
                      .+.+|.+||.++.+.+++.+  |+ ..+.++.|+.++..++++...++..+. ++..+..+++.+.|    |+..+++..
T Consensus       290 ~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~-~~~d~~~la~~t~G~sgadl~~l~~eA  368 (644)
T PRK10733        290 GIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANLVNEA  368 (644)
T ss_pred             CeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCC-CcCCHHHHHhhCCCCCHHHHHHHHHHH
Confidence            57788889999999999986  66 567999999999999998887654432 12235668887776    666666665


Q ss_pred             HHHh--hCCCccchhhhhhh
Q 020071          214 QATY--SGFRFVNQENVFKV  231 (331)
Q Consensus       214 ~~~~--~~~~~i~~~~v~~~  231 (331)
                      ...+  .+...|+.+++.+.
T Consensus       369 a~~a~r~~~~~i~~~d~~~a  388 (644)
T PRK10733        369 ALFAARGNKRVVSMVEFEKA  388 (644)
T ss_pred             HHHHHHcCCCcccHHHHHHH
Confidence            4332  35567888887654

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

Probab=99.55  E-value=2.3e-13  Score=117.89  Aligned_cols=170  Identities=24%  Similarity=0.245  Sum_probs=110.9

Q ss_pred             CCCCccccCHHHHHHHHHHHH----------cCCCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC-
Q 020071           22 TKVCDIVGNLDAVARLGIIAR----------DGNMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR-   88 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~----------~~~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-   88 (331)
                      ..|+|+.|..++++.|+.++-          ....|  .+|++||||+|||.+|++++.+.     +..|+.+..+... 
T Consensus       209 ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvATEc-----~tTFFNVSsstltS  283 (491)
T KOG0738|consen  209 IKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATEC-----GTTFFNVSSSTLTS  283 (491)
T ss_pred             cChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHHHhh-----cCeEEEechhhhhh
Confidence            479999999999999888753          22222  39999999999999999999987     6778887766542 


Q ss_pred             ---C--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH------------HHHHHHHHHHHHhc-----CCcEEEE
Q 020071           89 ---G--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA------------GAQQALRRTMEIYS-----NSTRFAL  146 (331)
Q Consensus        89 ---~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~------------~~~~~Ll~~le~~~-----~~~~~I~  146 (331)
                         |  ...++-++..+..       --+.+|||||+|.+..            .....|+-.|+...     ..+++|+
T Consensus       284 KwRGeSEKlvRlLFemARf-------yAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVL  356 (491)
T KOG0738|consen  284 KWRGESEKLVRLLFEMARF-------YAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMVL  356 (491)
T ss_pred             hhccchHHHHHHHHHHHHH-------hCCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEEEE
Confidence               2  1222323222222       2256999999998832            23566777776322     2345655


Q ss_pred             e-eCCCCCCChhhhcccce-eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC
Q 020071          147 A-CNVSSKIIEPIQSRCAI-VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG  204 (331)
Q Consensus       147 ~-~~~~~~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  204 (331)
                      + ||-+..+..++++|+.. |.++-|+.+.....+ +++-..-...++-.++.|++.+.|
T Consensus       357 AATN~PWdiDEAlrRRlEKRIyIPLP~~~~R~~Li-~~~l~~~~~~~~~~~~~lae~~eG  415 (491)
T KOG0738|consen  357 AATNFPWDIDEALRRRLEKRIYIPLPDAEARSALI-KILLRSVELDDPVNLEDLAERSEG  415 (491)
T ss_pred             eccCCCcchHHHHHHHHhhheeeeCCCHHHHHHHH-HHhhccccCCCCccHHHHHHHhcC
Confidence            5 56688999999999865 445444444444444 443333223344456777777655

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.54  E-value=3.1e-13  Score=126.29  Aligned_cols=195  Identities=14%  Similarity=0.189  Sum_probs=132.6

Q ss_pred             CCCCccccCHHHHHHHHHHHHc--CCCCeEEEeCCCCccHHHHHHHHHHHhc------CCCCCCceEEeecCCCCChHhH
Q 020071           22 TKVCDIVGNLDAVARLGIIARD--GNMPNLILAGPPGTGKTTSILALAHELL------GPNYREAVMELNASDDRGIDVV   93 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l~------~~~~~~~~~~~~~~~~~~~~~i   93 (331)
                      ..|++++|++..++.+.+.+..  ....+|+|+|++||||+.+|+.+.+.+.      ......+|+.+||.... .+.+
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~-e~ll  294 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIA-ESLL  294 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCC-hhhH
Confidence            3688999999999988888764  2223499999999999999999998732      22235689999998753 2333


Q ss_pred             HHHHHHHHhccc----------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCC-
Q 020071           94 RNKIKMFAQKKV----------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVS-  151 (331)
Q Consensus        94 ~~~i~~~~~~~~----------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~-  151 (331)
                      ...+-......+          .+..+..+++||||++.|+...|..|++++++.           +.++++|++++.. 
T Consensus       295 eseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~~~~~dvRiIaat~~~L  374 (538)
T PRK15424        295 EAELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDL  374 (538)
T ss_pred             HHHhcCCccccccCccccccCCchhccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCceeccceEEEEecCCCH
Confidence            332211111111          111345789999999999999999999999852           2356888887653 


Q ss_pred             ------CCCChhhhccc--ceeeecCCCH--HHHHHHHHHHHH----hcCCCCCHHHH-------HHHHHhc-CCCHHHH
Q 020071          152 ------SKIIEPIQSRC--AIVRFSRLSD--EEILSRLMVVVQ----EEKVPYVPEGL-------EAIIFTA-DGDMRQA  209 (331)
Q Consensus       152 ------~~l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~~~~----~~~~~i~~~~~-------~~l~~~~-~g~~r~~  209 (331)
                            ..+.+.+-.|.  ..+.++|+.+  +++..++...++    ..+..+++++.       +.|..+. .||+|++
T Consensus       375 ~~~v~~g~Fr~dL~yrL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~~~~a~~~L~~y~WPGNvREL  454 (538)
T PRK15424        375 EEDVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESFLKQSLAALSAPFSAALRQGLQQCETLLLHYDWPGNVREL  454 (538)
T ss_pred             HHHHhcccchHHHHHHhcCCeecCCChhhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHhhHHHHHHHHhCCCCchHHHH
Confidence                  12334455553  4567888876  455555444443    45667888776       3444433 6999999


Q ss_pred             HHHHHHHh
Q 020071          210 LNNLQATY  217 (331)
Q Consensus       210 ~~~l~~~~  217 (331)
                      .+.++.++
T Consensus       455 ~nvier~~  462 (538)
T PRK15424        455 RNLMERLA  462 (538)
T ss_pred             HHHHHHHH
Confidence            99998765

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

Probab=99.54  E-value=4.7e-14  Score=108.88  Aligned_cols=106  Identities=28%  Similarity=0.312  Sum_probs=82.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADS  122 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~  122 (331)
                      ++|+||+|+|||++++.+++.+     +.+++.+++....      ....+.+.+.......      .+.|++|||+|.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l-----~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~------~~~vl~iDe~d~   69 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL-----GFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSA------KPCVLFIDEIDK   69 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT-----TSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTS------TSEEEEEETGGG
T ss_pred             CEEECcCCCCeeHHHHHHHhhc-----ccccccccccccccccccccccccccccccccccc------cceeeeeccchh
Confidence            6899999999999999999998     7888998876543      1223334444332221      368999999999


Q ss_pred             CCHHH-----------HHHHHHHHHHhcC---CcEEEEeeCCCCCCChhhh-ccccee
Q 020071          123 MTAGA-----------QQALRRTMEIYSN---STRFALACNVSSKIIEPIQ-SRCAIV  165 (331)
Q Consensus       123 l~~~~-----------~~~Ll~~le~~~~---~~~~I~~~~~~~~l~~~l~-sr~~~i  165 (331)
                      +....           .+.|+..++....   .+.+|++||..+.+.+++. +||...
T Consensus        70 l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~~~~i~~~l~~~rf~~~  127 (132)
T PF00004_consen   70 LFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNSPDKIDPALLRSRFDRR  127 (132)
T ss_dssp             TSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESSGGGSCHHHHSTTSEEE
T ss_pred             cccccccccccccccccceeeecccccccccccceeEEeeCChhhCCHhHHhCCCcEE
Confidence            97765           7888899987665   4889999999999999999 888653

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 ....

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

Probab=99.54  E-value=3.4e-13  Score=125.41  Aligned_cols=214  Identities=21%  Similarity=0.279  Sum_probs=144.5

Q ss_pred             CCCchhhhcCCCC--------C-CccccCHHHHHHHHHHHH------cCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           11 YDIPWVEKYRPTK--------V-CDIVGNLDAVARLGIIAR------DGNMPNLILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        11 ~~~~~~~~~~p~~--------~-~~~ig~~~~~~~l~~~l~------~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      .++||..+-.-..        + .|=.|-+++++++..++.      +-+-|-++|+||||+|||++++.+|+.+     
T Consensus       300 l~lPW~~~sk~~~Dl~~a~~iLd~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al-----  374 (782)
T COG0466         300 LDLPWGKRSKDKLDLKKAEKILDKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL-----  374 (782)
T ss_pred             HhCCCccccchhhhHHHHHHHhcccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh-----
Confidence            4678887544221        1 134577888887766653      1222447999999999999999999999     


Q ss_pred             CCceEEeecCCCCChHhHHH------------HHHHHHhcccCCCCCCceEEEEeCCCCCCH----HHHHHHHHHHHH--
Q 020071           76 REAVMELNASDDRGIDVVRN------------KIKMFAQKKVTLPPGKHKVVVLDEADSMTA----GAQQALRRTMEI--  137 (331)
Q Consensus        76 ~~~~~~~~~~~~~~~~~i~~------------~i~~~~~~~~~~~~~~~~vviide~d~l~~----~~~~~Ll~~le~--  137 (331)
                      +..|+.+.-...+....|+.            +++......     ....|+++||+|+|+.    +...+|+++|+-  
T Consensus       375 ~RkfvR~sLGGvrDEAEIRGHRRTYIGamPGrIiQ~mkka~-----~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQ  449 (782)
T COG0466         375 GRKFVRISLGGVRDEAEIRGHRRTYIGAMPGKIIQGMKKAG-----VKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQ  449 (782)
T ss_pred             CCCEEEEecCccccHHHhccccccccccCChHHHHHHHHhC-----CcCCeEEeechhhccCCCCCChHHHHHhhcCHhh
Confidence            77888887655444333333            233322222     2356999999999964    456788888761  


Q ss_pred             -----------h--cCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHH-----HHhc-----CCCCCHHH
Q 020071          138 -----------Y--SNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVV-----VQEE-----KVPYVPEG  194 (331)
Q Consensus       138 -----------~--~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~-----~~~~-----~~~i~~~~  194 (331)
                                 +  -.++.||.|+|+.+.++.+|+.|..++++..++++|-.++.++.     .+..     .+.+++++
T Consensus       450 N~~F~DhYLev~yDLS~VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~a  529 (782)
T COG0466         450 NNTFSDHYLEVPYDLSKVMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEA  529 (782)
T ss_pred             cCchhhccccCccchhheEEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcchHHHHHcCCCccceeecHHH
Confidence                       1  14678999999999999999999999999999999877776554     2333     35689999


Q ss_pred             HHHHHHhcC--CCHHHHHHHHHHH----h-----h-CCC--ccchhhhhhhcCC
Q 020071          195 LEAIIFTAD--GDMRQALNNLQAT----Y-----S-GFR--FVNQENVFKVCDQ  234 (331)
Q Consensus       195 ~~~l~~~~~--g~~r~~~~~l~~~----~-----~-~~~--~i~~~~v~~~~~~  234 (331)
                      +..|++...  .-.|.+-..+.++    +     . ...  .|+..++.+.++.
T Consensus       530 i~~iI~~YTREAGVR~LeR~i~ki~RK~~~~i~~~~~k~~~~i~~~~l~~yLG~  583 (782)
T COG0466         530 IKDIIRYYTREAGVRNLEREIAKICRKAAKKILLKKEKSIVKIDEKNLKKYLGV  583 (782)
T ss_pred             HHHHHHHHhHhhhhhHHHHHHHHHHHHHHHHHHhcCcccceeeCHHHHHHHhCC
Confidence            999887642  2344444444332    2     1 111  4666677776665

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

Probab=99.54  E-value=3.7e-13  Score=121.96  Aligned_cols=207  Identities=17%  Similarity=0.204  Sum_probs=143.8

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHcCCC--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARDGNM--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI   97 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i   97 (331)
                      .+-+|++|+|....+..+.+.++....  ..+|+.|++||||..+|+++++.-...  ..+|+.+||... ...-+...+
T Consensus       240 a~y~f~~Iig~S~~m~~~~~~akr~A~tdstVLi~GESGTGKElfA~~IH~~S~R~--~~PFIaiNCaAi-Pe~LlESEL  316 (560)
T COG3829         240 AKYTFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGKELFARAIHNLSPRA--NGPFIAINCAAI-PETLLESEL  316 (560)
T ss_pred             cccchhhhccCCHHHHHHHHHHHhhcCCCCcEEEecCCCccHHHHHHHHHhcCccc--CCCeEEEecccC-CHHHHHHHH
Confidence            445899999999999888888776532  239999999999999999999865433  668999999875 333344433


Q ss_pred             HHHHhcccC----------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHH-----------hcCCcEEEEeeCCC-----
Q 020071           98 KMFAQKKVT----------LPPGKHKVVVLDEADSMTAGAQQALRRTMEI-----------YSNSTRFALACNVS-----  151 (331)
Q Consensus        98 ~~~~~~~~~----------~~~~~~~vviide~d~l~~~~~~~Ll~~le~-----------~~~~~~~I~~~~~~-----  151 (331)
                      -.+...+|+          +..+..+.+|+||+..|+...|..|+++|++           .+.++++|.+||..     
T Consensus       317 FGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVRIIAATN~nL~~~i  396 (560)
T COG3829         317 FGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVRIIAATNRNLEKMI  396 (560)
T ss_pred             hCcCCccccccccCCCCcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceeeEEEEEeccCcCHHHHH
Confidence            333333332          1124678999999999999999999999985           24578899998863     


Q ss_pred             --CCCChhhhccccee--eecCCCH--HHH----HHHHHHHHHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh
Q 020071          152 --SKIIEPIQSRCAIV--RFSRLSD--EEI----LSRLMVVVQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATY  217 (331)
Q Consensus       152 --~~l~~~l~sr~~~i--~~~~~~~--~~~----~~~l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~  217 (331)
                        ..+-..|--|..++  .++|+.+  +++    ..++.+..++.+   ..+++++...|.++. .||+|.+.|.++.+.
T Consensus       397 ~~G~FReDLYYRLNV~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~a~~~L~~y~WPGNVRELeNviER~v  476 (560)
T COG3829         397 AEGTFREDLYYRLNVIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPDALALLLRYDWPGNVRELENVIERAV  476 (560)
T ss_pred             hcCcchhhheeeeceeeecCCCcccCcchHHHHHHHHHHHHHHHcCCCcccCCHHHHHHHHhCCCCchHHHHHHHHHHHH
Confidence              23334444455443  5555554  333    233333344443   237899999988875 799999999998764


Q ss_pred             ---hCCCccchhhhh
Q 020071          218 ---SGFRFVNQENVF  229 (331)
Q Consensus       218 ---~~~~~i~~~~v~  229 (331)
                         .....|+.++.-
T Consensus       477 ~~~~~~~~I~~~~lp  491 (560)
T COG3829         477 NLVESDGLIDADDLP  491 (560)
T ss_pred             hccCCcceeehhhcc
Confidence               344556666553

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.54  E-value=5.3e-13  Score=125.82  Aligned_cols=206  Identities=18%  Similarity=0.158  Sum_probs=141.1

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI   97 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i   97 (331)
                      ....|++++|.+..+..+.+.++.-  ...+++|+|++||||+.+|++++.....  ...+|+.+||.... .+.+...+
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s~r--~~~pfv~inca~~~-~~~~e~el  275 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSPR--GKKPFLALNCASIP-DDVVESEL  275 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHhCCC--CCCCeEEeccccCC-HHHHHHHh
Confidence            3458999999998888777666532  2223999999999999999998876432  24688999998753 22222221


Q ss_pred             HHHHhccc---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCC------
Q 020071           98 KMFAQKKV---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVS------  151 (331)
Q Consensus        98 ~~~~~~~~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~------  151 (331)
                      -......+         .+..+..++++|||++.|+...|..|++++++.           +.++++|++++..      
T Consensus       276 FG~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~l~~l~~  355 (520)
T PRK10820        276 FGHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQ  355 (520)
T ss_pred             cCCCCCCcCCcccCCCChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCCHHHHHH
Confidence            10000000         011245789999999999999999999999863           2356888877653      


Q ss_pred             -CCCChhhhccc--ceeeecCCCH--HHHHHH----HHHHHHhcCC---CCCHHHHHHHHHh-cCCCHHHHHHHHHHHhh
Q 020071          152 -SKIIEPIQSRC--AIVRFSRLSD--EEILSR----LMVVVQEEKV---PYVPEGLEAIIFT-ADGDMRQALNNLQATYS  218 (331)
Q Consensus       152 -~~l~~~l~sr~--~~i~~~~~~~--~~~~~~----l~~~~~~~~~---~i~~~~~~~l~~~-~~g~~r~~~~~l~~~~~  218 (331)
                       ..+.+.+..|.  ..+.++|+.+  +++..+    +.+.+.+.|.   .+++++++.|..+ -.||+|++.+.++.+..
T Consensus       356 ~g~f~~dL~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls~~a~~~L~~y~WPGNvreL~nvl~~a~~  435 (520)
T PRK10820        356 KGEFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRALT  435 (520)
T ss_pred             cCCccHHHHhhcCeeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence             23556677774  4578888876  344433    4444555543   6899999999988 58999999999987753


Q ss_pred             --CCCccchhhh
Q 020071          219 --GFRFVNQENV  228 (331)
Q Consensus       219 --~~~~i~~~~v  228 (331)
                        .+..|+.+++
T Consensus       436 ~~~~~~i~~~~~  447 (520)
T PRK10820        436 QLEGYELRPQDI  447 (520)
T ss_pred             hCCCCcccHHHc
Confidence              4456777764

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=99.53  E-value=2.5e-12  Score=114.19  Aligned_cols=190  Identities=17%  Similarity=0.222  Sum_probs=138.5

Q ss_pred             CccccCHHHHHHHHHHHHcC----CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHH-HH---
Q 020071           25 CDIVGNLDAVARLGIIARDG----NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVR-NK---   96 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~----~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~-~~---   96 (331)
                      +.+.|++..+..++.++...    ....++++|.||+|||.+...+...+.+.......+.+||........+- .+   
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~~  229 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFSS  229 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHHH
Confidence            45789999999888887652    33349999999999999999999888777666677888887642221111 11   


Q ss_pred             --------------HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh---cCCcEEEEeeCCC---CCCCh
Q 020071           97 --------------IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY---SNSTRFALACNVS---SKIIE  156 (331)
Q Consensus        97 --------------i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~---~~~~~~I~~~~~~---~~l~~  156 (331)
                                    ...+...--.  ....-++|+||.|.|....+..|..+.+.|   ...+++|.++|..   +++++
T Consensus       230 ~~q~~~s~~~~~~~~~~~~~h~~q--~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~Lp  307 (529)
T KOG2227|consen  230 LLQDLVSPGTGMQHLEKFEKHTKQ--SKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLP  307 (529)
T ss_pred             HHHHhcCCchhHHHHHHHHHHHhc--ccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHhh
Confidence                          1111111110  123579999999999888888888888764   3566677778874   57888


Q ss_pred             hhhccc----ceeeecCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHhc---CCCHHHHHHHHHHH
Q 020071          157 PIQSRC----AIVRFSRLSDEEILSRLMVVVQEEKVP-YVPEGLEAIIFTA---DGDMRQALNNLQAT  216 (331)
Q Consensus       157 ~l~sr~----~~i~~~~~~~~~~~~~l~~~~~~~~~~-i~~~~~~~l~~~~---~g~~r~~~~~l~~~  216 (331)
                      .|..|+    .++.|+|++.+++.+++.++...+... +-+.+++.+|+..   .||+|+|+..++.+
T Consensus       308 rL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~a  375 (529)
T KOG2227|consen  308 RLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRA  375 (529)
T ss_pred             hhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            888864    568999999999999999998876543 3445788888653   68999999999843

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.53  E-value=1.1e-12  Score=116.01  Aligned_cols=217  Identities=19%  Similarity=0.210  Sum_probs=136.1

Q ss_pred             hhhhcCCC-CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC--CceE-----------
Q 020071           15 WVEKYRPT-KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYR--EAVM-----------   80 (331)
Q Consensus        15 ~~~~~~p~-~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~--~~~~-----------   80 (331)
                      +.++-+|. .|.+++||++++..|...+.+..+.+++|.|++|+|||++++.+++.+.+...-  .+|.           
T Consensus         6 ~~~~~~~~~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~~~p~~p~~~~~   85 (350)
T CHL00081          6 LKKKERPVFPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSDPELMSD   85 (350)
T ss_pred             hhhccCCCCCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCCCCCCChhhhch
Confidence            34444555 899999999999999999988888789999999999999999998887642200  0111           


Q ss_pred             ----------------------EeecC--CC--CChHhHHHHHHHHHh--cccCCCCCCceEEEEeCCCCCCHHHHHHHH
Q 020071           81 ----------------------ELNAS--DD--RGIDVVRNKIKMFAQ--KKVTLPPGKHKVVVLDEADSMTAGAQQALR  132 (331)
Q Consensus        81 ----------------------~~~~~--~~--~~~~~i~~~i~~~~~--~~~~~~~~~~~vviide~d~l~~~~~~~Ll  132 (331)
                                            .+...  +.  .|.=++...+.....  .+..+...++.++++||++.+++..|..|+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL~~~~Q~~LL  165 (350)
T CHL00081         86 EVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLVDILL  165 (350)
T ss_pred             hhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhCCHHHHHHHH
Confidence                                  00000  00  000001111111000  011112346789999999999999999999


Q ss_pred             HHHHHhc-----------CCcEEEEe--eCCC-CCCChhhhcccce-eeecCCC-HHHHHHHHHHHHH------------
Q 020071          133 RTMEIYS-----------NSTRFALA--CNVS-SKIIEPIQSRCAI-VRFSRLS-DEEILSRLMVVVQ------------  184 (331)
Q Consensus       133 ~~le~~~-----------~~~~~I~~--~~~~-~~l~~~l~sr~~~-i~~~~~~-~~~~~~~l~~~~~------------  184 (331)
                      +.|++..           ..++|+++  .|.. ..+.+.+..|+.. +.+..++ .++-.+++++...            
T Consensus       166 eam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~LldRf~l~i~l~~~~~~~~e~~il~~~~~~~~~~~~~~~~~  245 (350)
T CHL00081        166 DSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELRVKIVEQRTSFDKNPQEFREKY  245 (350)
T ss_pred             HHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHHHhCceeecCCCCChHHHHHHHHhhhccccChhhhhhhh
Confidence            9998621           12234443  3333 3688999999754 5666665 3444444443211            


Q ss_pred             -----------------hcCCCCCHHHHHHHHHhc---C-CCHHHHHHHHHHH-----hhCCCccchhhhhhh
Q 020071          185 -----------------EEKVPYVPEGLEAIIFTA---D-GDMRQALNNLQAT-----YSGFRFVNQENVFKV  231 (331)
Q Consensus       185 -----------------~~~~~i~~~~~~~l~~~~---~-g~~r~~~~~l~~~-----~~~~~~i~~~~v~~~  231 (331)
                                       -..+.++++.++++++.+   + ..+|..+..++.+     ..+...++.+||..+
T Consensus       246 ~~~~~~~~~~I~~ar~~~~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~  318 (350)
T CHL00081        246 EESQEELRSKIVAAQNLLPKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKV  318 (350)
T ss_pred             ccccccCHHHHHHHHHhcCCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence                             134678888888877654   2 2577777776543     267778888888764

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

Probab=99.53  E-value=2.2e-13  Score=121.22  Aligned_cols=194  Identities=16%  Similarity=0.197  Sum_probs=135.2

Q ss_pred             CCCCccccCHHHHHHHHHHHHcCCC--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHH
Q 020071           22 TKVCDIVGNLDAVARLGIIARDGNM--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKM   99 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~   99 (331)
                      ..++++||.....+.+.+.++.-..  .++|+.|++|+||+.+|+.++..-.. ....+|+.+||......-..-+ +=.
T Consensus        75 ~~~~~LIG~~~~~~~~~eqik~~ap~~~~vLi~GetGtGKel~A~~iH~~s~r-~~~~PFI~~NCa~~~en~~~~e-LFG  152 (403)
T COG1221          75 EALDDLIGESPSLQELREQIKAYAPSGLPVLIIGETGTGKELFARLIHALSAR-RAEAPFIAFNCAAYSENLQEAE-LFG  152 (403)
T ss_pred             hhhhhhhccCHHHHHHHHHHHhhCCCCCcEEEecCCCccHHHHHHHHHHhhhc-ccCCCEEEEEHHHhCcCHHHHH-Hhc
Confidence            3678999999999988888877322  23999999999999999999943322 1678999999987633222222 111


Q ss_pred             HHhcccC---------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHH-----------hcCCcEEEEeeCCC--CCCCh-
Q 020071          100 FAQKKVT---------LPPGKHKVVVLDEADSMTAGAQQALRRTMEI-----------YSNSTRFALACNVS--SKIIE-  156 (331)
Q Consensus       100 ~~~~~~~---------~~~~~~~vviide~d~l~~~~~~~Ll~~le~-----------~~~~~~~I~~~~~~--~~l~~-  156 (331)
                      .....++         +...+++++++||++.|+...|..|+++||+           .+.++++|++|+..  +.+.+ 
T Consensus       153 ~~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~~~l~~~~~~g  232 (403)
T COG1221         153 HEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEAVLAG  232 (403)
T ss_pred             cccceeecccCCcCchheecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEecCCCCCcCCCceeeeccccCHHHHHHhh
Confidence            1111111         1234689999999999999999999999996           45688888887653  44555 


Q ss_pred             -hhhccc--ceeeecCCCH--HHH----HHHHHHHHHhcCCCC---CHHHHHHHHHh-cCCCHHHHHHHHHHHh
Q 020071          157 -PIQSRC--AIVRFSRLSD--EEI----LSRLMVVVQEEKVPY---VPEGLEAIIFT-ADGDMRQALNNLQATY  217 (331)
Q Consensus       157 -~l~sr~--~~i~~~~~~~--~~~----~~~l~~~~~~~~~~i---~~~~~~~l~~~-~~g~~r~~~~~l~~~~  217 (331)
                       ++..|+  ..++++|+.+  .|+    ..++...+++.+..+   +++++..+..+ ..||+|++.|.++.++
T Consensus       233 ~dl~~rl~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~y~~pGNirELkN~Ve~~~  306 (403)
T COG1221         233 ADLTRRLNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAYDWPGNIRELKNLVERAV  306 (403)
T ss_pred             cchhhhhcCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHH
Confidence             666654  4568888776  233    333445555555443   34677777766 4899999999998764

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

Probab=99.52  E-value=7.7e-13  Score=108.46  Aligned_cols=160  Identities=19%  Similarity=0.282  Sum_probs=115.8

Q ss_pred             hcCCC-CCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           18 KYRPT-KVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        18 ~~~p~-~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      .-+|. +..|+-|-+-.+++++..++-           | .+|. +|+|||||+|||.+++++++..     ...|+.+.
T Consensus       147 ~ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t-----~a~firvv  221 (408)
T KOG0727|consen  147 DEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHT-----TAAFIRVV  221 (408)
T ss_pred             CCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhcc-----chheeeec
Confidence            33444 677888877777777776542           2 3344 9999999999999999999987     67788887


Q ss_pred             cCCC------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHH-----hcCC
Q 020071           84 ASDD------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEI-----YSNS  141 (331)
Q Consensus        84 ~~~~------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~-----~~~~  141 (331)
                      +++.      .|...+++.+.-+.+       ..+.++||||+|.+.           .+.|..|++++..     ...+
T Consensus       222 gsefvqkylgegprmvrdvfrlake-------napsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~n  294 (408)
T KOG0727|consen  222 GSEFVQKYLGEGPRMVRDVFRLAKE-------NAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTN  294 (408)
T ss_pred             cHHHHHHHhccCcHHHHHHHHHHhc-------cCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccc
Confidence            7643      244456666554443       336799999998763           3456667766653     4568


Q ss_pred             cEEEEeeCCCCCCChhhhccc---ceeeecCCCHHHHHHHHHHHHHhcCCC
Q 020071          142 TRFALACNVSSKIIEPIQSRC---AIVRFSRLSDEEILSRLMVVVQEEKVP  189 (331)
Q Consensus       142 ~~~I~~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~  189 (331)
                      +.+|+++|...-+.|++.+-+   ..++|+-++..+-+-.+..+..+-++.
T Consensus       295 vkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls  345 (408)
T KOG0727|consen  295 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLS  345 (408)
T ss_pred             eEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCC
Confidence            899999999999999998743   458998888777777777777666543

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

Probab=99.52  E-value=4e-13  Score=128.07  Aligned_cols=184  Identities=21%  Similarity=0.269  Sum_probs=131.0

Q ss_pred             ccccCHHHHHHHHHHHHcC-------CCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHH
Q 020071           26 DIVGNLDAVARLGIIARDG-------NMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNK   96 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~-------~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~   96 (331)
                      .++||++++..+.+.++..       +.|  +++|.||+|+|||.+|++++..+++.  ...++.+++++......+..+
T Consensus       492 rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~--e~aliR~DMSEy~EkHsVSrL  569 (786)
T COG0542         492 RVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGD--EQALIRIDMSEYMEKHSVSRL  569 (786)
T ss_pred             ceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCC--CccceeechHHHHHHHHHHHH
Confidence            5899999999998887652       223  38999999999999999999999765  356777877655222222222


Q ss_pred             HHHHHhcccC-------------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCCC
Q 020071           97 IKMFAQKKVT-------------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVSS  152 (331)
Q Consensus        97 i~~~~~~~~~-------------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~~  152 (331)
                      +    ..|..             ....++.||++||+++.+++..|.|+++|++..           .++++|+|+|--.
T Consensus       570 I----GaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~Gs  645 (786)
T COG0542         570 I----GAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAGS  645 (786)
T ss_pred             h----CCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccch
Confidence            1    11110             002457899999999999999999999999532           4778888876410


Q ss_pred             ----------------------------CCChhhhcccc-eeeecCCCHHHHHHHHHHHHH-------hcC--CCCCHHH
Q 020071          153 ----------------------------KIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQ-------EEK--VPYVPEG  194 (331)
Q Consensus       153 ----------------------------~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~-------~~~--~~i~~~~  194 (331)
                                                  .+.|.+.+|.. ++.|.|++.+.+.+++....+       ..+  +.+++++
T Consensus       646 ~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L~~~~i~l~~s~~a  725 (786)
T COG0542         646 EEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRLAERGITLELSDEA  725 (786)
T ss_pred             HHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHHHHhCCceEEECHHH
Confidence                                        13477777876 889999999999888766543       334  4568999


Q ss_pred             HHHHHHhcC---CCHHHHHHHHHH
Q 020071          195 LEAIIFTAD---GDMRQALNNLQA  215 (331)
Q Consensus       195 ~~~l~~~~~---g~~r~~~~~l~~  215 (331)
                      .++|++...   .-.|-+.+.++.
T Consensus       726 ~~~l~~~gyd~~~GARpL~R~Iq~  749 (786)
T COG0542         726 KDFLAEKGYDPEYGARPLRRAIQQ  749 (786)
T ss_pred             HHHHHHhccCCCcCchHHHHHHHH
Confidence            999998763   234555555544

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

Probab=99.52  E-value=6.9e-13  Score=125.08  Aligned_cols=182  Identities=21%  Similarity=0.242  Sum_probs=130.9

Q ss_pred             CCCCccccCHHHHHHHHHHHHc-----------C-CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           22 TKVCDIVGNLDAVARLGIIARD-----------G-NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      .+|.++.|.+.....+...+..           + ..+ .+|||||||+|||.+|++++...     +.+|+.+..++..
T Consensus       239 v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~-----~~~fi~v~~~~l~  313 (494)
T COG0464         239 VTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES-----RSRFISVKGSELL  313 (494)
T ss_pred             cceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhC-----CCeEEEeeCHHHh
Confidence            4788898888888877666542           2 222 38999999999999999999987     7888888877543


Q ss_pred             C------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHH--HhcCCcEEEEeeC
Q 020071           89 G------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTME--IYSNSTRFALACN  149 (331)
Q Consensus        89 ~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le--~~~~~~~~I~~~~  149 (331)
                      +      ...+++.+..+..       ..+.+|||||+|.+.           ....+.|+..++  +...++.+|.+||
T Consensus       314 sk~vGesek~ir~~F~~A~~-------~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN  386 (494)
T COG0464         314 SKWVGESEKNIRELFEKARK-------LAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATN  386 (494)
T ss_pred             ccccchHHHHHHHHHHHHHc-------CCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCC
Confidence            2      1234444444332       336799999999883           245677777775  4556777888899


Q ss_pred             CCCCCChhhhc--ccc-eeeecCCCHHHHHHHHHHHHHhcCCC-CCHHHHHHHHHhcCC-CHHHHHHHHHH
Q 020071          150 VSSKIIEPIQS--RCA-IVRFSRLSDEEILSRLMVVVQEEKVP-YVPEGLEAIIFTADG-DMRQALNNLQA  215 (331)
Q Consensus       150 ~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~-i~~~~~~~l~~~~~g-~~r~~~~~l~~  215 (331)
                      .+..+.+++.+  |+. .+.+++|+..+..++++......+.. .++-..+.+++.+.| ....+...++.
T Consensus       387 ~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~e  457 (494)
T COG0464         387 RPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVRE  457 (494)
T ss_pred             CccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHH
Confidence            99999999998  874 57999999999999999988765543 234567778876655 33334444443

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

Probab=99.52  E-value=6.4e-13  Score=117.85  Aligned_cols=159  Identities=16%  Similarity=0.172  Sum_probs=115.8

Q ss_pred             CCCchhh--hcCCCCCCccccCHHHHHHHHHHH----Hc-------CCC-C-eEEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           11 YDIPWVE--KYRPTKVCDIVGNLDAVARLGIIA----RD-------GNM-P-NLILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        11 ~~~~~~~--~~~p~~~~~~ig~~~~~~~l~~~l----~~-------~~~-~-~~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      +...|.-  --+|.+|+.++-.+..++.+..-+    ++       |+. . .+|||||||||||+++.++|+.+     
T Consensus       185 ~~~~W~~v~f~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L-----  259 (457)
T KOG0743|consen  185 KGGEWRSVGFPHPSTFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYL-----  259 (457)
T ss_pred             cCCcceecCCCCCCCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhc-----
Confidence            4455654  234789999998877777655444    33       221 1 28999999999999999999999     


Q ss_pred             CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH------------------HHHHHHHHHHHH
Q 020071           76 REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA------------------GAQQALRRTMEI  137 (331)
Q Consensus        76 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~------------------~~~~~Ll~~le~  137 (331)
                      ..+++.++-+....-.+++.++..         ..++.||+|+|+|.--.                  -...-||+.++.
T Consensus       260 ~ydIydLeLt~v~~n~dLr~LL~~---------t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDG  330 (457)
T KOG0743|consen  260 NYDIYDLELTEVKLDSDLRHLLLA---------TPNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDG  330 (457)
T ss_pred             CCceEEeeeccccCcHHHHHHHHh---------CCCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhcc
Confidence            788888887665444456665543         34577999999986511                  113458899986


Q ss_pred             hcCCc----EEEEeeCCCCCCChhhhcccc---eeeecCCCHHHHHHHHHHHH
Q 020071          138 YSNST----RFALACNVSSKIIEPIQSRCA---IVRFSRLSDEEILSRLMVVV  183 (331)
Q Consensus       138 ~~~~~----~~I~~~~~~~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~  183 (331)
                      ....|    ++|||||..++|.|+|.+++.   .+.+...+...+........
T Consensus       331 lwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL  383 (457)
T KOG0743|consen  331 LWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYL  383 (457)
T ss_pred             ccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhc
Confidence            65544    789999999999999999653   47888888888887777654

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.51  E-value=8.2e-13  Score=128.25  Aligned_cols=206  Identities=10%  Similarity=0.078  Sum_probs=139.7

Q ss_pred             CCCCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHH-HHH
Q 020071           22 TKVCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRN-KIK   98 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~-~i~   98 (331)
                      ..|++++|.+..+..+.+.++.-  ...+++|+|++|+||+++|+++++....  ...+|+.+||.... .+.+.. .+.
T Consensus       322 ~~~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r--~~~pfv~vnc~~~~-~~~~~~elfg  398 (638)
T PRK11388        322 HTFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESER--AAGPYIAVNCQLYP-DEALAEEFLG  398 (638)
T ss_pred             ccccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCCc--cCCCeEEEECCCCC-hHHHHHHhcC
Confidence            36999999998888776666542  2223999999999999999999987632  24689999998763 222222 111


Q ss_pred             HH---Hh--cccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CCCC
Q 020071           99 MF---AQ--KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SKII  155 (331)
Q Consensus        99 ~~---~~--~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~l~  155 (331)
                      ..   ..  ....+..+.+.+++|||++.|+...|..|++++++..           .++++|++++..       ..+.
T Consensus       399 ~~~~~~~~~~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~l~~~~~~~~f~  478 (638)
T PRK11388        399 SDRTDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAMLVEQNRFS  478 (638)
T ss_pred             CCCcCccCCCCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCCHHHHHhcCCCh
Confidence            00   00  0001113457899999999999999999999998532           256788887652       2334


Q ss_pred             hhhhccc--ceeeecCCCHH--HHHHHHHHHHH----hc--CCCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hCCCc
Q 020071          156 EPIQSRC--AIVRFSRLSDE--EILSRLMVVVQ----EE--KVPYVPEGLEAIIFTA-DGDMRQALNNLQATY--SGFRF  222 (331)
Q Consensus       156 ~~l~sr~--~~i~~~~~~~~--~~~~~l~~~~~----~~--~~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~~~~  222 (331)
                      +.+-.|.  ..+.++|+.+.  ++..++...+.    +.  .+.+++++++.|..+. .||+|++.+.++.++  .....
T Consensus       479 ~dL~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvreL~~~l~~~~~~~~~~~  558 (638)
T PRK11388        479 RQLYYALHAFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDDALARLVSYRWPGNDFELRSVIENLALSSDNGR  558 (638)
T ss_pred             HHHhhhhceeEEeCCChhhhhhHHHHHHHHHHHHHHHHhCCCCCcCHHHHHHHHcCCCCChHHHHHHHHHHHHHhCCCCe
Confidence            4444453  44678888763  45444444333    32  2468999999999988 899999999999865  23446


Q ss_pred             cchhhhhh
Q 020071          223 VNQENVFK  230 (331)
Q Consensus       223 i~~~~v~~  230 (331)
                      |+.+++-.
T Consensus       559 i~~~~lp~  566 (638)
T PRK11388        559 IRLSDLPE  566 (638)
T ss_pred             ecHHHCch
Confidence            77666543

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

Probab=99.51  E-value=4.9e-13  Score=121.41  Aligned_cols=185  Identities=24%  Similarity=0.300  Sum_probs=115.9

Q ss_pred             ccccCHHHHHHHHHHHHc-------C---------CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC
Q 020071           26 DIVGNLDAVARLGIIARD-------G---------NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG   89 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~-------~---------~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (331)
                      .++||+++++.+...+.+       +         ...++||+||+|+|||++|+.+++.+     +.+++.+++.....
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l-----~~pf~~id~~~l~~  146 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL-----DVPFAIADATTLTE  146 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh-----CCCceecchhhccc
Confidence            389999999988665521       1         12459999999999999999999988     56677666644311


Q ss_pred             h----HhHHHHHHHHHh-cccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHh-----c------
Q 020071           90 I----DVVRNKIKMFAQ-KKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIY-----S------  139 (331)
Q Consensus        90 ~----~~i~~~i~~~~~-~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~-----~------  139 (331)
                      .    ......+..... .........+.+|+|||+|.++.              ..|++|+++||..     +      
T Consensus       147 ~gyvG~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~~  226 (412)
T PRK05342        147 AGYVGEDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKH  226 (412)
T ss_pred             CCcccchHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcCc
Confidence            0    122223222211 11111134578999999999975              3789999999842     1      


Q ss_pred             --CCcEEEEeeCC------------------------------CC----------------------CCChhhhcccc-e
Q 020071          140 --NSTRFALACNV------------------------------SS----------------------KIIEPIQSRCA-I  164 (331)
Q Consensus       140 --~~~~~I~~~~~------------------------------~~----------------------~l~~~l~sr~~-~  164 (331)
                        ..+++|.|+|-                              ..                      .+.|.+..|.. +
T Consensus       227 ~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEflgRld~i  306 (412)
T PRK05342        227 PQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFIGRLPVV  306 (412)
T ss_pred             CCCCeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHhCCCCee
Confidence              01122222211                              00                      13466667764 4


Q ss_pred             eeecCCCHHHHHHHHHH----H-------HHhcC--CCCCHHHHHHHHHhcC---CCHHHHHHHHHH
Q 020071          165 VRFSRLSDEEILSRLMV----V-------VQEEK--VPYVPEGLEAIIFTAD---GDMRQALNNLQA  215 (331)
Q Consensus       165 i~~~~~~~~~~~~~l~~----~-------~~~~~--~~i~~~~~~~l~~~~~---g~~r~~~~~l~~  215 (331)
                      +.|.|++.+++.+++..    .       +...+  +.++++++++|++.+-   .-.|.+...++.
T Consensus       307 v~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~GAR~Lrriie~  373 (412)
T PRK05342        307 ATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEE  373 (412)
T ss_pred             eecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhCCCCCCCCchHHHHHHH
Confidence            69999999999998862    2       22334  4579999999998742   234444444443

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

Probab=99.50  E-value=3.7e-12  Score=103.73  Aligned_cols=189  Identities=18%  Similarity=0.171  Sum_probs=134.5

Q ss_pred             cCCCCCCccccCHHHHHHHHHHHH---cCCC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHH
Q 020071           19 YRPTKVCDIVGNLDAVARLGIIAR---DGNM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVR   94 (331)
Q Consensus        19 ~~p~~~~~~ig~~~~~~~l~~~l~---~~~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~   94 (331)
                      +.|..+.+++|.++..+.|.+...   +|.. .|+|+||..|+||+++++++..++..+  +...++++..+......+-
T Consensus        54 ~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~--glrLVEV~k~dl~~Lp~l~  131 (287)
T COG2607          54 PDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADE--GLRLVEVDKEDLATLPDLV  131 (287)
T ss_pred             CCCcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhc--CCeEEEEcHHHHhhHHHHH
Confidence            345567789999888887755432   3443 459999999999999999999999766  3448888877664444444


Q ss_pred             HHHHHHHhcccCCCCCCceEEEEeCCCCCCH-HHHHHHHHHHH----HhcCCcEEEEeeCCCCCCChhh-----------
Q 020071           95 NKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-GAQQALRRTME----IYSNSTRFALACNVSSKIIEPI-----------  158 (331)
Q Consensus        95 ~~i~~~~~~~~~~~~~~~~vviide~d~l~~-~~~~~Ll~~le----~~~~~~~~I~~~~~~~~l~~~l-----------  158 (331)
                      +.++   .      ...+-|||+|+.-.=.. .+-.+|...||    ..|.++.|..++|....++..+           
T Consensus       132 ~~Lr---~------~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~~~~eih  202 (287)
T COG2607         132 ELLR---A------RPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEGSTGEIH  202 (287)
T ss_pred             HHHh---c------CCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCcccccHhhhhCCCcccccC
Confidence            4433   2      33477999998754433 34556666665    5678888888888755443222           


Q ss_pred             -----------hccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHH-----HHHHHhcCCCHHHHHHHHHHHhh
Q 020071          159 -----------QSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGL-----EAIIFTADGDMRQALNNLQATYS  218 (331)
Q Consensus       159 -----------~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~-----~~l~~~~~g~~r~~~~~l~~~~~  218 (331)
                                 ..|+ ..+.|.|.+.++...++...+++.++.++++.+     +....+.+-+-|.|.+.++.+++
T Consensus       203 ~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~~~~e~l~~eAl~WAt~rg~RSGR~A~QF~~~~~g  279 (287)
T COG2607         203 PSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLDISDEELHAEALQWATTRGGRSGRVAWQFIRDLAG  279 (287)
T ss_pred             hhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcCCCccHhHHHHHHHHHh
Confidence                       2343 347999999999999999999999999977544     33334556688999998887764

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.50  E-value=7e-13  Score=134.73  Aligned_cols=173  Identities=8%  Similarity=0.101  Sum_probs=115.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC---------------------------------------
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG---------------------------------------   89 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~---------------------------------------   89 (331)
                      +|++||||||||.+|+++|...     +.+++.+.+++...                                       
T Consensus      1633 ILLiGPPGTGKTlLAKALA~es-----~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e~~n~ 1707 (2281)
T CHL00206       1633 ILVIGSIGTGRSYLVKYLATNS-----YVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMNA 1707 (2281)
T ss_pred             eEEECCCCCCHHHHHHHHHHhc-----CCceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhhhcch
Confidence            9999999999999999999998     66677665533210                                       


Q ss_pred             --------hH--hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH-----HHHHHHHHHHHh-----cCCcEEEEeeC
Q 020071           90 --------ID--VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG-----AQQALRRTMEIY-----SNSTRFALACN  149 (331)
Q Consensus        90 --------~~--~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~-----~~~~Ll~~le~~-----~~~~~~I~~~~  149 (331)
                              ..  .++...+.+..       ..+.||+|||+|.+...     ..+.|+..|+..     ..++++|.+||
T Consensus      1708 ~~~~m~~~e~~~rIr~lFelARk-------~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIAATN 1780 (2281)
T CHL00206       1708 LTMDMMPKIDRFYITLQFELAKA-------MSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTH 1780 (2281)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHHH-------CCCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEEeCC
Confidence                    00  02222222222       23689999999999753     246677777632     34677888899


Q ss_pred             CCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHH--HHHHHHHhcCC-CHHHHHHHHHHH---h--h
Q 020071          150 VSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPE--GLEAIIFTADG-DMRQALNNLQAT---Y--S  218 (331)
Q Consensus       150 ~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~--~~~~l~~~~~g-~~r~~~~~l~~~---~--~  218 (331)
                      .+..+.|++.+  |+ ..+.++.|+..+..+++.......++.+++.  ..+.+++.+.| +.+.+.+++..+   +  .
T Consensus      1781 RPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLvNEAaliAirq 1860 (2281)
T CHL00206       1781 IPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALTNEALSISITQ 1860 (2281)
T ss_pred             CcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHc
Confidence            99999999998  66 4578888887776666654444445555533  36788888865 444444444433   2  4


Q ss_pred             CCCccchhhhhhhcC
Q 020071          219 GFRFVNQENVFKVCD  233 (331)
Q Consensus       219 ~~~~i~~~~v~~~~~  233 (331)
                      +...|+.+++..++.
T Consensus      1861 ~ks~Id~~~I~~Al~ 1875 (2281)
T CHL00206       1861 KKSIIDTNTIRSALH 1875 (2281)
T ss_pred             CCCccCHHHHHHHHH
Confidence            556788888776544

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.49  E-value=3.9e-12  Score=110.72  Aligned_cols=177  Identities=15%  Similarity=0.132  Sum_probs=118.6

Q ss_pred             cCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH-hHHHH-
Q 020071           19 YRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID-VVRNK-   96 (331)
Q Consensus        19 ~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~-~i~~~-   96 (331)
                      +.|..-.+++-.+.....+...+..++  +++|.||+|+|||++++.+++.+     +.+++.+++....... .+... 
T Consensus        39 ~~p~~d~~y~f~~~~~~~vl~~l~~~~--~ilL~G~pGtGKTtla~~lA~~l-----~~~~~rV~~~~~l~~~DliG~~~  111 (327)
T TIGR01650        39 HVPDIDPAYLFDKATTKAICAGFAYDR--RVMVQGYHGTGKSTHIEQIAARL-----NWPCVRVNLDSHVSRIDLVGKDA  111 (327)
T ss_pred             CCCCCCCCccCCHHHHHHHHHHHhcCC--cEEEEeCCCChHHHHHHHHHHHH-----CCCeEEEEecCCCChhhcCCCce
Confidence            345544567777777777777776544  69999999999999999999999     6777777765432211 11100 


Q ss_pred             --------HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH--------------hcCCcEEEEeeCCC---
Q 020071           97 --------IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI--------------YSNSTRFALACNVS---  151 (331)
Q Consensus        97 --------i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~--------------~~~~~~~I~~~~~~---  151 (331)
                              ...+...++......+.++++||++..+++.++.|..+||.              +++..++|.++|..   
T Consensus       112 ~~l~~g~~~~~f~~GpL~~A~~~g~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~G  191 (327)
T TIGR01650       112 IVLKDGKQITEFRDGILPWALQHNVALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLG  191 (327)
T ss_pred             eeccCCcceeEEecCcchhHHhCCeEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcC
Confidence                    01111112111123456899999999999999999999982              34577888888863   


Q ss_pred             ---------CCCChhhhcccce-eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc
Q 020071          152 ---------SKIIEPIQSRCAI-VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTA  202 (331)
Q Consensus       152 ---------~~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~  202 (331)
                               ..++.+..+|+.+ +.+..++.++-.+++...+....-..++..++++++..
T Consensus       192 d~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~~~~~~~~~~~i~~~mV~la  252 (327)
T TIGR01650       192 DTTGLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKAKGFDDTEGKDIINAMVRVA  252 (327)
T ss_pred             CCCcceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhccCCCccchHHHHHHHHHHH
Confidence                     2578999999975 58999999999999877542211011345566665543

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.49  E-value=2.1e-12  Score=114.20  Aligned_cols=209  Identities=17%  Similarity=0.161  Sum_probs=129.7

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc-------CCCC---CCc--------------
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL-------GPNY---REA--------------   78 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~-------~~~~---~~~--------------   78 (331)
                      .|..++||++++..+.-.+-.....|++|.|++|+|||++++.++..+.       |+..   ..+              
T Consensus         2 pf~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~   81 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMCEEVRIRVDSQ   81 (337)
T ss_pred             CccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccChHHhhhhhcc
Confidence            4788999999999887766666666899999999999999999998772       1100   000              


Q ss_pred             -----------eEEeec--C--CCCChHhHHHHHHHHHh--cccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc--
Q 020071           79 -----------VMELNA--S--DDRGIDVVRNKIKMFAQ--KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS--  139 (331)
Q Consensus        79 -----------~~~~~~--~--~~~~~~~i~~~i~~~~~--~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~--  139 (331)
                                 ++.+-.  .  ...|.-.+...++.-..  .+..+...++.++++||++.++...|..|++.|++..  
T Consensus        82 ~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~~~Q~~Ll~~l~~g~~~  161 (337)
T TIGR02030        82 EPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLEDHLVDVLLDVAASGWNV  161 (337)
T ss_pred             cccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCHHHHHHHHHHHHhCCeE
Confidence                       011000  0  11111122222211100  1111113557899999999999999999999998631  


Q ss_pred             -----------CCcEEEEeeCCC-CCCChhhhcccce-eeecCCCH-HHHHHHHHHHHH---------------------
Q 020071          140 -----------NSTRFALACNVS-SKIIEPIQSRCAI-VRFSRLSD-EEILSRLMVVVQ---------------------  184 (331)
Q Consensus       140 -----------~~~~~I~~~~~~-~~l~~~l~sr~~~-i~~~~~~~-~~~~~~l~~~~~---------------------  184 (331)
                                 ..+.+|.+.|.. ..+.+.+.+|+.. +.+.+++. ++..+++.....                     
T Consensus       162 v~r~G~~~~~~~r~iviat~np~eg~l~~~LldRf~l~i~l~~p~~~eer~eIL~~~~~~~~~~~~~~~~~~~e~~~~~~  241 (337)
T TIGR02030       162 VEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGLHAEIRTVRDVELRVEIVERRTEYDADPHAFCEKWQTEQEALQA  241 (337)
T ss_pred             EEECCEEEEcCCCEEEEeccccccCCCCHHHHhhcceEEECCCCCCHHHHHHHHHhhhhcccCchhhhhhhhhhhhcCHH
Confidence                       223333334433 3688999999864 46666655 554555544211                     


Q ss_pred             --------hcCCCCCHHHHHHHHHhc---CC-CHHHHHHHHHHH-----hhCCCccchhhhhhh
Q 020071          185 --------EEKVPYVPEGLEAIIFTA---DG-DMRQALNNLQAT-----YSGFRFVNQENVFKV  231 (331)
Q Consensus       185 --------~~~~~i~~~~~~~l~~~~---~g-~~r~~~~~l~~~-----~~~~~~i~~~~v~~~  231 (331)
                              -..+.++++.+++++..+   +. .+|..+..+..+     ..+...++.+||..+
T Consensus       242 ~I~~a~~~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~  305 (337)
T TIGR02030       242 KIVNAQNLLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRV  305 (337)
T ss_pred             HHHHHHHHhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence                    134568888888777643   33 467777776543     257778999988764

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.

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=99.49  E-value=3.2e-13  Score=131.29  Aligned_cols=197  Identities=30%  Similarity=0.395  Sum_probs=155.1

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcC------------C--CCe--EEEeCCCCccHHHHHHHHHHHhcCCCCC
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDG------------N--MPN--LILAGPPGTGKTTSILALAHELLGPNYR   76 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~------------~--~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~   76 (331)
                      .-|.++|+|....++.|.......+.+++...            .  ...  ++++||+|+|||+.+...++.+     +
T Consensus       308 ~~~~~k~~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~-----g  382 (871)
T KOG1968|consen  308 AGWTEKYQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKEL-----G  382 (871)
T ss_pred             cccccccccccHHhhhcccchhhhhhhHHHhhhccccccccccCcchhhHHHHHhcCCCCCCchhhHhhhhhhc-----c
Confidence            45999999999999999888777777777653            1  112  4999999999999999999999     8


Q ss_pred             CceEEeecCCCCChHhHHHHHHHHHhcccC-----------CCCCCceEEEEeCCCCCCHHH---HHHHHHHHHHhcCCc
Q 020071           77 EAVMELNASDDRGIDVVRNKIKMFAQKKVT-----------LPPGKHKVVVLDEADSMTAGA---QQALRRTMEIYSNST  142 (331)
Q Consensus        77 ~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~-----------~~~~~~~vviide~d~l~~~~---~~~Ll~~le~~~~~~  142 (331)
                      ..+++.|+++.++...+.+.+..+......           ...+...||++||+|.+..+.   ..++-.+..  ....
T Consensus       383 ~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~~~~~dRg~v~~l~~l~~--ks~~  460 (871)
T KOG1968|consen  383 FKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDGMFGEDRGGVSKLSSLCK--KSSR  460 (871)
T ss_pred             cceeecCccccccccHHHhhhhccccccchhhhhcccccccccccceeEEEEeccccccchhhhhHHHHHHHHH--hccC
Confidence            899999999887665555555433322110           001234599999999998733   445555555  3567


Q ss_pred             EEEEeeCCCCCCCh-hhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 020071          143 RFALACNVSSKIIE-PIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       143 ~~I~~~~~~~~l~~-~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~  216 (331)
                      .+|++||+..-... ++.+-|..++|..|+...+..++..++..+++.++++.++.+++.++||+|.+++.++.+
T Consensus       461 Piv~~cndr~~p~sr~~~~~~~~l~f~kP~~~~i~~ri~si~~se~~ki~~~~l~~~s~~~~~DiR~~i~~lq~~  535 (871)
T KOG1968|consen  461 PLVCTCNDRNLPKSRALSRACSDLRFSKPSSELIRSRIMSICKSEGIKISDDVLEEISKLSGGDIRQIIMQLQFW  535 (871)
T ss_pred             CeEEEecCCCCccccchhhhcceeeecCCcHHHHHhhhhhhhcccceecCcHHHHHHHHhcccCHHHHHHHHhhh
Confidence            78999998765543 555557899999999999999999999999999999999999999999999999999877

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

Probab=99.49  E-value=4.5e-13  Score=116.77  Aligned_cols=155  Identities=20%  Similarity=0.275  Sum_probs=113.0

Q ss_pred             CCC-CCCccccCHHHHHHHHHHHHc--------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC--
Q 020071           20 RPT-KVCDIVGNLDAVARLGIIARD--------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR--   88 (331)
Q Consensus        20 ~p~-~~~~~ig~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--   88 (331)
                      +++ .|+++|-++....++......        +-+.+++||||||+|||.+|+.+++..     +.+|....+.+..  
T Consensus       349 ~gk~pl~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~S-----GlDYA~mTGGDVAPl  423 (630)
T KOG0742|consen  349 RGKDPLEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARHS-----GLDYAIMTGGDVAPL  423 (630)
T ss_pred             cCCCCcCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCCCCCchHHHHHHHhhc-----CCceehhcCCCcccc
Confidence            344 389999999998888776532        223359999999999999999999987     7777777766542  


Q ss_pred             ---ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC---------CHHHHHHHHHHH---HHhcCCcEEEEeeCCCCC
Q 020071           89 ---GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM---------TAGAQQALRRTM---EIYSNSTRFALACNVSSK  153 (331)
Q Consensus        89 ---~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l---------~~~~~~~Ll~~l---e~~~~~~~~I~~~~~~~~  153 (331)
                         ++..|.++++....      +.++-++||||+|.+         +.....+|..+|   -+.+.+.++++++|.+..
T Consensus       424 G~qaVTkiH~lFDWakk------S~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfRTGdqSrdivLvlAtNrpgd  497 (630)
T KOG0742|consen  424 GAQAVTKIHKLFDWAKK------SRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFRTGDQSRDIVLVLATNRPGD  497 (630)
T ss_pred             chHHHHHHHHHHHHHhh------cccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHHhcccccceEEEeccCCccc
Confidence               23344444443332      345779999999855         333333443333   345567889999999999


Q ss_pred             CChhhhccc-ceeeecCCCHHHHHHHHHHHHHh
Q 020071          154 IIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQE  185 (331)
Q Consensus       154 l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~  185 (331)
                      +..++-.|. .+++|+-|..+|...+|..++.+
T Consensus       498 lDsAV~DRide~veFpLPGeEERfkll~lYlnk  530 (630)
T KOG0742|consen  498 LDSAVNDRIDEVVEFPLPGEEERFKLLNLYLNK  530 (630)
T ss_pred             hhHHHHhhhhheeecCCCChHHHHHHHHHHHHH
Confidence            999999997 67899999999988888777654

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

Probab=99.49  E-value=8.4e-13  Score=122.36  Aligned_cols=180  Identities=20%  Similarity=0.318  Sum_probs=123.5

Q ss_pred             ccccCHHHHHHHHHHHHcCC----C--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHH----
Q 020071           26 DIVGNLDAVARLGIIARDGN----M--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRN----   95 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~~----~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~----   95 (331)
                      |=.|-+++++++..++.=++    .  +-++|+||||+|||++++.+|+.+     +..|+.+.-.......+|+.    
T Consensus       412 DHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL-----nRkFfRfSvGG~tDvAeIkGHRRT  486 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL-----NRKFFRFSVGGMTDVAEIKGHRRT  486 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh-----CCceEEEeccccccHHhhccccee
Confidence            45688888888888765332    2  227999999999999999999999     55566665443322222221    


Q ss_pred             --------HHHHHHhcccCCCCCCceEEEEeCCCCCCH----HHHHHHHHHHHH------------hc---CCcEEEEee
Q 020071           96 --------KIKMFAQKKVTLPPGKHKVVVLDEADSMTA----GAQQALRRTMEI------------YS---NSTRFALAC  148 (331)
Q Consensus        96 --------~i~~~~~~~~~~~~~~~~vviide~d~l~~----~~~~~Ll~~le~------------~~---~~~~~I~~~  148 (331)
                              +++.....     .....+++|||+|++..    +...+|+++|+-            .|   ..+.||+++
T Consensus       487 YVGAMPGkiIq~LK~v-----~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTA  561 (906)
T KOG2004|consen  487 YVGAMPGKIIQCLKKV-----KTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTA  561 (906)
T ss_pred             eeccCChHHHHHHHhh-----CCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEec
Confidence                    22222221     23467999999999963    446788887761            11   466799999


Q ss_pred             CCCCCCChhhhcccceeeecCCCHHHHHHHHHHHH-----Hh-----cCCCCCHHHHHHHHHhc--CCCHHHHHHHHHH
Q 020071          149 NVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVV-----QE-----EKVPYVPEGLEAIIFTA--DGDMRQALNNLQA  215 (331)
Q Consensus       149 ~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~-----~~-----~~~~i~~~~~~~l~~~~--~g~~r~~~~~l~~  215 (331)
                      |....++++|+.|..+|++..+..+|-..+.++.+     +.     +.+.++++++..|+++.  +.-.|.+...+++
T Consensus       562 N~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yLip~a~~~~gl~~e~v~is~~al~~lI~~YcrEaGVRnLqk~iek  640 (906)
T KOG2004|consen  562 NVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLIPQALKDCGLKPEQVKISDDALLALIERYCREAGVRNLQKQIEK  640 (906)
T ss_pred             cccccCChhhhhhhheeeccCccHHHHHHHHHHhhhhHHHHHcCCCHHhcCccHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            99999999999999999999999988776655543     22     34678888887777543  2234555444443

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=99.49  E-value=4.2e-12  Score=117.71  Aligned_cols=190  Identities=18%  Similarity=0.240  Sum_probs=135.3

Q ss_pred             cccCHHHHHHHHHHHHcC----CCC-eEEEeCCCCccHHHHHHHHHHHhc-----CCCCCCceEEeecCCCCChHhHHHH
Q 020071           27 IVGNLDAVARLGIIARDG----NMP-NLILAGPPGTGKTTSILALAHELL-----GPNYREAVMELNASDDRGIDVVRNK   96 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~----~~~-~~ll~G~~G~GKt~la~~l~~~l~-----~~~~~~~~~~~~~~~~~~~~~i~~~   96 (331)
                      +-+++.....+..++...    ... -+++.|-||+|||.+++.+.+.+.     .+-..+.|+++|+....+..++.+.
T Consensus       398 LpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~  477 (767)
T KOG1514|consen  398 LPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEK  477 (767)
T ss_pred             ccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHH
Confidence            456666666666665542    222 389999999999999999999775     2345678999998877666555544


Q ss_pred             HHHHHh--------------cccC--CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc---CCcEEEEeeCCC---CC-
Q 020071           97 IKMFAQ--------------KKVT--LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS---NSTRFALACNVS---SK-  153 (331)
Q Consensus        97 i~~~~~--------------~~~~--~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~---~~~~~I~~~~~~---~~-  153 (331)
                      |-....              ..+.  .+.....||+|||.|.|-...|..|..+++.|.   ...++|.++|..   ++ 
T Consensus       478 I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNTmdlPEr~  557 (767)
T KOG1514|consen  478 IWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANTMDLPERL  557 (767)
T ss_pred             HHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecccccCHHHH
Confidence            411111              1111  113456799999999999889999999999765   355566666653   23 


Q ss_pred             CChhhhcc--cceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh---cCCCHHHHHHHHHHHh
Q 020071          154 IIEPIQSR--CAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFT---ADGDMRQALNNLQATY  217 (331)
Q Consensus       154 l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~---~~g~~r~~~~~l~~~~  217 (331)
                      +...+-||  +..+.|.|++..++.+++..+++.. ..++..+++.+++.   ..||.|+++.+++.++
T Consensus       558 l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~-~~f~~~aielvarkVAavSGDaRraldic~RA~  625 (767)
T KOG1514|consen  558 LMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL-DAFENKAIELVARKVAAVSGDARRALDICRRAA  625 (767)
T ss_pred             hccchhhhccceeeecCCCCHHHHHHHHHHhhcch-hhcchhHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            33456666  4679999999999999999887654 35788888887765   3699999999998764

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=99.48  E-value=1.3e-12  Score=128.39  Aligned_cols=175  Identities=19%  Similarity=0.223  Sum_probs=123.6

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHc-----------C-CC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARD-----------G-NM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      ...+|+++.|.+..++.+.+.+..           | .. .+++||||+|+|||++++++++.+     +.+++.+++.+
T Consensus       173 ~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~-----~~~~i~i~~~~  247 (733)
T TIGR01243       173 PKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA-----GAYFISINGPE  247 (733)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh-----CCeEEEEecHH
Confidence            345899999999999998887642           1 12 238999999999999999999988     56677777653


Q ss_pred             CC----C--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--CCcEEEEe
Q 020071           87 DR----G--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEIYS--NSTRFALA  147 (331)
Q Consensus        87 ~~----~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~~~--~~~~~I~~  147 (331)
                      ..    +  ...++..+..+.       ...+.+++|||+|.+..           ..++.|+..++...  ..+.+|.+
T Consensus       248 i~~~~~g~~~~~l~~lf~~a~-------~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~a  320 (733)
T TIGR01243       248 IMSKYYGESEERLREIFKEAE-------ENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGA  320 (733)
T ss_pred             HhcccccHHHHHHHHHHHHHH-------hcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEee
Confidence            21    1  123344443332       23357999999988742           34677888887543  34566668


Q ss_pred             eCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHhcCCCHHH
Q 020071          148 CNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYV-PEGLEAIIFTADGDMRQ  208 (331)
Q Consensus       148 ~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~-~~~~~~l~~~~~g~~r~  208 (331)
                      +|.+..+.+.+++  |+ ..+.+.+|+.++..++++.....  ..+. +..++.+++.+.|-.+.
T Consensus       321 tn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~--~~l~~d~~l~~la~~t~G~~ga  383 (733)
T TIGR01243       321 TNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRN--MPLAEDVDLDKLAEVTHGFVGA  383 (733)
T ss_pred             cCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcC--CCCccccCHHHHHHhCCCCCHH
Confidence            8888999999887  55 45789999999999999865443  3333 34578888888775433

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.

>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=99.48  E-value=1.5e-12  Score=102.17  Aligned_cols=138  Identities=33%  Similarity=0.345  Sum_probs=96.3

Q ss_pred             ccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHH----HHHhc
Q 020071           28 VGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIK----MFAQK  103 (331)
Q Consensus        28 ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~----~~~~~  103 (331)
                      .|++..+..+...+......+++++||+|+|||++++.+++.+...  +..++.+++..............    .....
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHFLVRLLFE   78 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhhhHhHHHH
Confidence            3677888888888877555579999999999999999999988532  34566666554422222221111    00000


Q ss_pred             ccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh------cCCcEEEEeeCCCC--CCChhhhccc-ceeeecC
Q 020071          104 KVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY------SNSTRFALACNVSS--KIIEPIQSRC-AIVRFSR  169 (331)
Q Consensus       104 ~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~------~~~~~~I~~~~~~~--~l~~~l~sr~-~~i~~~~  169 (331)
                      .  ....+..++++||++.+.....+.+...++..      +..+.+|++++...  .+.+.+.+|+ ..+.++|
T Consensus        79 ~--~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~~~r~~~~i~~~~  151 (151)
T cd00009          79 L--AEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL  151 (151)
T ss_pred             h--hccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcChhHHhhhccEeecCC
Confidence            0  01345789999999999888888888888865      35788888888776  7888999998 5566543

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.

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

Probab=99.48  E-value=4.5e-13  Score=112.28  Aligned_cols=177  Identities=19%  Similarity=0.233  Sum_probs=115.2

Q ss_pred             CCC-CCCccccCHHHHHHHHHHHH----------cCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           20 RPT-KVCDIVGNLDAVARLGIIAR----------DGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        20 ~p~-~~~~~ig~~~~~~~l~~~l~----------~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      +|. .|+|+.|.+.+++.|+..+-          .++.|-  +|||||||+||+.+|++++.+.     +..|+.+..++
T Consensus       127 KPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA-----nSTFFSvSSSD  201 (439)
T KOG0739|consen  127 KPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA-----NSTFFSVSSSD  201 (439)
T ss_pred             CCCCchhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc-----CCceEEeehHH
Confidence            355 79999999999999988742          334332  8999999999999999999988     55677777766


Q ss_pred             CCCh--HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH----HH-------HHHHHHHHHH---hcCCcEEEEeeCC
Q 020071           87 DRGI--DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA----GA-------QQALRRTMEI---YSNSTRFALACNV  150 (331)
Q Consensus        87 ~~~~--~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~----~~-------~~~Ll~~le~---~~~~~~~I~~~~~  150 (331)
                      ..+.  ..-..+++...+..-   ...+.+|||||+|.+..    ..       ...|+--|+.   -...+.++.+||-
T Consensus       202 LvSKWmGESEkLVknLFemAR---e~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNi  278 (439)
T KOG0739|consen  202 LVSKWMGESEKLVKNLFEMAR---ENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNI  278 (439)
T ss_pred             HHHHHhccHHHHHHHHHHHHH---hcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCCC
Confidence            5221  122223333333222   44578999999998842    11       2233333432   2244555666777


Q ss_pred             CCCCChhhhcccceeeecCCCHHHHHH-HHHHHHHhcCCCCCHHHHHHHHHhcCC
Q 020071          151 SSKIIEPIQSRCAIVRFSRLSDEEILS-RLMVVVQEEKVPYVPEGLEAIIFTADG  204 (331)
Q Consensus       151 ~~~l~~~l~sr~~~i~~~~~~~~~~~~-~l~~~~~~~~~~i~~~~~~~l~~~~~g  204 (331)
                      +..+..+|++|+..--+-|+++...+. .++-.+..-...+++...+.|++.+.|
T Consensus       279 Pw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeG  333 (439)
T KOG0739|consen  279 PWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEG  333 (439)
T ss_pred             chhHHHHHHHHhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCC
Confidence            889999999998654344555444433 333333333445788889999998866

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

Probab=99.47  E-value=9.4e-13  Score=113.72  Aligned_cols=184  Identities=22%  Similarity=0.202  Sum_probs=123.4

Q ss_pred             CCCccccCHHHHHHHHHHHH----------cCC---CC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           23 KVCDIVGNLDAVARLGIIAR----------DGN---MP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~----------~~~---~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      +|+|+-|-+..++.++..+-          .++   .+ .+|+|||||||||.+|++++++.     +.+|+.+..+...
T Consensus        90 ~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akea-----ga~fInv~~s~lt  164 (386)
T KOG0737|consen   90 SFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEA-----GANFINVSVSNLT  164 (386)
T ss_pred             ehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHc-----CCCcceeeccccc
Confidence            68899999999998877753          221   22 38999999999999999999998     7778877776553


Q ss_pred             ChH--hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH----HHHHHH----HHHH-------HhcCCcEEEEeeCCC
Q 020071           89 GID--VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG----AQQALR----RTME-------IYSNSTRFALACNVS  151 (331)
Q Consensus        89 ~~~--~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~----~~~~Ll----~~le-------~~~~~~~~I~~~~~~  151 (331)
                      +.-  .-...++.....+.   .-.+.+++|||+|.+...    ..++..    ++|-       +....+.++.+||.+
T Consensus       165 ~KWfgE~eKlv~AvFslAs---Kl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNRP  241 (386)
T KOG0737|consen  165 SKWFGEAQKLVKAVFSLAS---KLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNRP  241 (386)
T ss_pred             hhhHHHHHHHHHHHHhhhh---hcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCCCC
Confidence            311  11122222222221   224779999999877421    111111    1111       222344555668889


Q ss_pred             CCCChhhhcc-cceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHH
Q 020071          152 SKIIEPIQSR-CAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQA  215 (331)
Q Consensus       152 ~~l~~~l~sr-~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~  215 (331)
                      ..+..++.+| +..+++.-|+..+..++|+-+.+.+.+. ++-.+..+++.+.| +-..+.+.+..
T Consensus       242 ~DlDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e~~e-~~vD~~~iA~~t~GySGSDLkelC~~  306 (386)
T KOG0737|consen  242 FDLDEAIIRRLPRRFHVGLPDAEQRRKILKVILKKEKLE-DDVDLDEIAQMTEGYSGSDLKELCRL  306 (386)
T ss_pred             ccHHHHHHHhCcceeeeCCCchhhHHHHHHHHhcccccC-cccCHHHHHHhcCCCcHHHHHHHHHH
Confidence            9999999999 5778999999999999999998888764 44457888988876 44444455443

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.47  E-value=5.8e-12  Score=114.65  Aligned_cols=201  Identities=14%  Similarity=0.124  Sum_probs=122.2

Q ss_pred             CccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee---cCCCCChHhHHHHH--HH
Q 020071           25 CDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN---ASDDRGIDVVRNKI--KM   99 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~---~~~~~~~~~i~~~i--~~   99 (331)
                      ..++|++++++.+...+..+.  |++|+||||+|||++|+.+++...... .+.+..+.   +.+..|...+....  ..
T Consensus        20 ~~i~gre~vI~lll~aalag~--hVLL~GpPGTGKT~LAraLa~~~~~~~-~F~~~~~~fttp~DLfG~l~i~~~~~~g~   96 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQNAR-AFEYLMTRFSTPEEVFGPLSIQALKDEGR   96 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--CEEEECCCChhHHHHHHHHHHHhcccC-cceeeeeeecCcHHhcCcHHHhhhhhcCc
Confidence            358999999999988887776  799999999999999999999864321 11122221   11111211112211  01


Q ss_pred             HHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc---------CCcEEEEeeCC-CC---CCChhhhcccce-e
Q 020071          100 FAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS---------NSTRFALACNV-SS---KIIEPIQSRCAI-V  165 (331)
Q Consensus       100 ~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~---------~~~~~I~~~~~-~~---~l~~~l~sr~~~-i  165 (331)
                      +...... +.....++++||++++++..+++|+..|++..         -..+|++++++ ..   ...+++..|+.+ +
T Consensus        97 f~r~~~G-~L~~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE~g~~leAL~DRFliri  175 (498)
T PRK13531         97 YQRLTSG-YLPEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYDRMLIRL  175 (498)
T ss_pred             hhhhcCC-ccccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHhhEEEEE
Confidence            1000000 01123499999999999999999999997522         23456555543 11   233588889843 5


Q ss_pred             eecCCC-HHHHHHHHHHHHH-----------------------hcCCCCCHHHHHHHHHhc------C----CCHHHHHH
Q 020071          166 RFSRLS-DEEILSRLMVVVQ-----------------------EEKVPYVPEGLEAIIFTA------D----GDMRQALN  211 (331)
Q Consensus       166 ~~~~~~-~~~~~~~l~~~~~-----------------------~~~~~i~~~~~~~l~~~~------~----g~~r~~~~  211 (331)
                      .++|++ .++..+++.....                       -..+.+++...+++.+..      .    -++|..+.
T Consensus       176 ~vp~l~~~~~e~~lL~~~~~~~~~~~~~~~vis~eel~~lq~~v~~V~v~d~v~eyI~~L~~~lr~~r~~~~~SpR~~~~  255 (498)
T PRK13531        176 WLDKVQDKANFRSMLTSQQDENDNPVPASLQITDEEYQQWQKEIGKITLPDHVFELIFQLRQQLDALPNAPYVSDRRWKK  255 (498)
T ss_pred             ECCCCCchHHHHHHHHcccccccCCCcccCCCCHHHHHHHHHHhcceeCCHHHHHHHHHHHHHHhcCCCCCCcCcHHHHH
Confidence            777886 4555666654211                       123556777777766543      1    35676666


Q ss_pred             HHHHH-----hhCCCccchhhhh
Q 020071          212 NLQAT-----YSGFRFVNQENVF  229 (331)
Q Consensus       212 ~l~~~-----~~~~~~i~~~~v~  229 (331)
                      .+..+     ..++..++.+|+.
T Consensus       256 l~~~akA~A~l~GR~~V~p~Dv~  278 (498)
T PRK13531        256 AIRLLQASAFFSGRDAIAPIDLI  278 (498)
T ss_pred             HHHHHHHHHHHCCCCCCCHHHHH
Confidence            55432     2677788888886

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.47  E-value=4.6e-12  Score=119.43  Aligned_cols=192  Identities=15%  Similarity=0.151  Sum_probs=134.3

Q ss_pred             CCCccccCHHHHHHHHHHHHcCC--CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           23 KVCDIVGNLDAVARLGIIARDGN--MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      .+.+++|++..++.+.+.+..-.  ..+|+|+|++||||+.+|++++.....  ...+++.+||..... +.+...+-..
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r--~~~p~v~v~c~~~~~-~~~e~~lfG~  261 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPR--ADKPLVYLNCAALPE-SLAESELFGH  261 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCCc--CCCCeEEEEcccCCh-HHHHHHhcCc
Confidence            57789999999988888776632  223999999999999999999997532  256899999986532 2222211000


Q ss_pred             Hhcc---------cCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CC
Q 020071          101 AQKK---------VTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SK  153 (331)
Q Consensus       101 ~~~~---------~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~  153 (331)
                      ....         ..+..+..++++|||++.|+.+.|..|++++++..           .++++|++++..       ..
T Consensus       262 ~~g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~~~~  341 (509)
T PRK05022        262 VKGAFTGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEVRAGR  341 (509)
T ss_pred             cccccCCCcccCCcchhhcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCCHHHHHHcCC
Confidence            0000         01113457889999999999999999999998532           367899988753       34


Q ss_pred             CChhhhcccc--eeeecCCCH--HHHHHHH----HHHHHhc---CCCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh
Q 020071          154 IIEPIQSRCA--IVRFSRLSD--EEILSRL----MVVVQEE---KVPYVPEGLEAIIFTA-DGDMRQALNNLQATY  217 (331)
Q Consensus       154 l~~~l~sr~~--~i~~~~~~~--~~~~~~l----~~~~~~~---~~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~  217 (331)
                      +.+.+-.|..  .+.++|+.+  +++..++    .+.+.+.   ...+++++++.|..+. .||+|++.+.++.++
T Consensus       342 f~~dL~~rl~~~~i~lPpLreR~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvrEL~~~i~ra~  417 (509)
T PRK05022        342 FRADLYHRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGLRSLRLSPAAQAALLAYDWPGNVRELEHVISRAA  417 (509)
T ss_pred             ccHHHHhcccccEeeCCCchhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCCcHHHHHHHHHHHH
Confidence            5566666643  467777776  3444433    3333333   3578999999999876 799999999998765

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

Probab=99.47  E-value=1.3e-12  Score=107.54  Aligned_cols=172  Identities=20%  Similarity=0.279  Sum_probs=117.9

Q ss_pred             CCC-CCCccccCHHHHHHHHHHHH-----------cC-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           20 RPT-KVCDIVGNLDAVARLGIIAR-----------DG-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        20 ~p~-~~~~~ig~~~~~~~l~~~l~-----------~~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      +|. ++.|+-|-+..++.|..++-           -| +.|. +|+|||||+|||.+|++++...     ...|..+.++
T Consensus       165 kPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT-----~aTFLKLAgP  239 (424)
T KOG0652|consen  165 KPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT-----NATFLKLAGP  239 (424)
T ss_pred             CCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc-----cchHHHhcch
Confidence            454 67788899999998877652           12 2233 9999999999999999999987     3344444333


Q ss_pred             CC------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHH-----hcCCcE
Q 020071           86 DD------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEI-----YSNSTR  143 (331)
Q Consensus        86 ~~------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~-----~~~~~~  143 (331)
                      ..      .|...+++.+.-+.       +..+.+|||||+|.+.           .+.|..++.++..     +...+.
T Consensus       240 QLVQMfIGdGAkLVRDAFaLAK-------EkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vK  312 (424)
T KOG0652|consen  240 QLVQMFIGDGAKLVRDAFALAK-------EKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVK  312 (424)
T ss_pred             HHHhhhhcchHHHHHHHHHHhh-------ccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceE
Confidence            21      23334444443333       3346799999998774           2456666666552     345778


Q ss_pred             EEEeeCCCCCCChhhhccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC
Q 020071          144 FALACNVSSKIIEPIQSRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG  204 (331)
Q Consensus       144 ~I~~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  204 (331)
                      +|.++|...-+.|++.+.+   ..++|+.|+++...++++-..++-++. ++-..+.|++.+.+
T Consensus       313 viAATNRvDiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~-~DvNfeELaRsTdd  375 (424)
T KOG0652|consen  313 VIAATNRVDILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVS-DDVNFEELARSTDD  375 (424)
T ss_pred             EEeecccccccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCC-CCCCHHHHhhcccc
Confidence            8999999999999887654   458999998888888887776666543 33346778877653

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

Probab=99.47  E-value=1.9e-12  Score=115.95  Aligned_cols=202  Identities=16%  Similarity=0.159  Sum_probs=137.5

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCC--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNM--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      .+.+|||++.++..+.+.++--..  ..||+.|++||||..+|+++++.-...  ..+++.+||... .......-+-..
T Consensus       221 ~~~~iIG~S~am~~ll~~i~~VA~Sd~tVLi~GETGtGKElvAraIH~~S~R~--~kPfV~~NCAAl-PesLlESELFGH  297 (550)
T COG3604         221 EVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTGKELVARAIHQLSPRR--DKPFVKLNCAAL-PESLLESELFGH  297 (550)
T ss_pred             ccccceecCHHHHHHHHHHHHHhcCCCeEEEecCCCccHHHHHHHHHhhCccc--CCCceeeecccc-chHHHHHHHhcc
Confidence            567899999999988888765322  239999999999999999999976443  668999999865 212222222111


Q ss_pred             HhcccC---------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCC-------CC
Q 020071          101 AQKKVT---------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVS-------SK  153 (331)
Q Consensus       101 ~~~~~~---------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~-------~~  153 (331)
                      ....|+         +..++++.+|+||+..|+...|.+|++.+++.           .-++++|.+||..       .+
T Consensus       298 eKGAFTGA~~~r~GrFElAdGGTLFLDEIGelPL~lQaKLLRvLQegEieRvG~~r~ikVDVRiIAATNRDL~~~V~~G~  377 (550)
T COG3604         298 EKGAFTGAINTRRGRFELADGGTLFLDEIGELPLALQAKLLRVLQEGEIERVGGDRTIKVDVRVIAATNRDLEEMVRDGE  377 (550)
T ss_pred             cccccccchhccCcceeecCCCeEechhhccCCHHHHHHHHHHHhhcceeecCCCceeEEEEEEEeccchhHHHHHHcCc
Confidence            122221         22357889999999999999999999999853           2467899998862       23


Q ss_pred             CChhhhccccee--eecCCCH-----HHHH-HHHHHHHHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHhh-CC
Q 020071          154 IIEPIQSRCAIV--RFSRLSD-----EEIL-SRLMVVVQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATYS-GF  220 (331)
Q Consensus       154 l~~~l~sr~~~i--~~~~~~~-----~~~~-~~l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~~-~~  220 (331)
                      +-..+--|..++  .++|+.+     ..+. .++++...+.|   ..+++++.+.|.++. .||+|.+.|.++.++. .+
T Consensus       378 FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~y~wPGNVRELen~veRavlla~  457 (550)
T COG3604         378 FRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSSYEWPGNVRELENVVERAVLLAG  457 (550)
T ss_pred             chhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHcCCCCCcHHHHHHHHHHHHHHhc
Confidence            444444555443  4455543     2233 33444444444   468999999998875 7999999999987652 23


Q ss_pred             Cccchhh
Q 020071          221 RFVNQEN  227 (331)
Q Consensus       221 ~~i~~~~  227 (331)
                      ..++..+
T Consensus       458 ~~~~~~d  464 (550)
T COG3604         458 RLTRRGD  464 (550)
T ss_pred             ccCCCcc
Confidence            3444333

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

Probab=99.46  E-value=2e-12  Score=116.77  Aligned_cols=185  Identities=22%  Similarity=0.262  Sum_probs=117.3

Q ss_pred             ccccCHHHHHHHHHHHH-------c---CC--------CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           26 DIVGNLDAVARLGIIAR-------D---GN--------MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~-------~---~~--------~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      .++||+++++.+...+.       .   ..        ..++||+||+|+|||++|+.+++.+     +.++..+++...
T Consensus        78 ~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l-----~~pf~~~da~~L  152 (413)
T TIGR00382        78 YVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARIL-----NVPFAIADATTL  152 (413)
T ss_pred             eecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhc-----CCCeEEechhhc
Confidence            37999999998876652       1   11        1359999999999999999999988     556666555432


Q ss_pred             CC----hHhHHHHHHHHHh-cccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHhc---------
Q 020071           88 RG----IDVVRNKIKMFAQ-KKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIYS---------  139 (331)
Q Consensus        88 ~~----~~~i~~~i~~~~~-~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~~---------  139 (331)
                      ..    .......+..... .+.......+.+|+|||+|+++.              ..|++|+++||...         
T Consensus       153 ~~~gyvG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr  232 (413)
T TIGR00382       153 TEAGYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGR  232 (413)
T ss_pred             cccccccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCCCc
Confidence            11    0112233322221 11111134567999999999976              58999999997321         


Q ss_pred             ----CCcEEEEeeCCC---------------------------C-----------------------CCChhhhcccc-e
Q 020071          140 ----NSTRFALACNVS---------------------------S-----------------------KIIEPIQSRCA-I  164 (331)
Q Consensus       140 ----~~~~~I~~~~~~---------------------------~-----------------------~l~~~l~sr~~-~  164 (331)
                          .++++|.|+|-.                           .                       .+.|.+..|.. +
T Consensus       233 ~~~~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflgRld~I  312 (413)
T TIGR00382       233 KHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIGRLPVI  312 (413)
T ss_pred             cccCCCeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhCCCCeE
Confidence                233445554320                           0                       13466777774 4


Q ss_pred             eeecCCCHHHHHHHHHHH----HH-------hcC--CCCCHHHHHHHHHhcC---CCHHHHHHHHHH
Q 020071          165 VRFSRLSDEEILSRLMVV----VQ-------EEK--VPYVPEGLEAIIFTAD---GDMRQALNNLQA  215 (331)
Q Consensus       165 i~~~~~~~~~~~~~l~~~----~~-------~~~--~~i~~~~~~~l~~~~~---g~~r~~~~~l~~  215 (331)
                      +.|.|++.+++.+++...    .+       ..+  +.++++++++|++.+-   --.|.+...++.
T Consensus       313 v~f~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~  379 (413)
T TIGR00382       313 ATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEG  379 (413)
T ss_pred             eecCCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHH
Confidence            689999999999988652    22       123  4568999999998742   234555555544

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.

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.45  E-value=8.1e-12  Score=120.35  Aligned_cols=209  Identities=17%  Similarity=0.111  Sum_probs=134.2

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc-----------CCCC----------------
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL-----------GPNY----------------   75 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~-----------~~~~----------------   75 (331)
                      .|.+|+||++++..+...+......++||+|++|+|||++|+.+++.+.           |...                
T Consensus         2 pf~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~~~~~~~   81 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECRRKYRPS   81 (633)
T ss_pred             CcchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhhhccccc
Confidence            3779999999999998888887777799999999999999999999882           2110                


Q ss_pred             ---CCceEEeecCCC----CChHhHHHHHHHHH--hcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh--------
Q 020071           76 ---REAVMELNASDD----RGIDVVRNKIKMFA--QKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY--------  138 (331)
Q Consensus        76 ---~~~~~~~~~~~~----~~~~~i~~~i~~~~--~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~--------  138 (331)
                         ..+|+.+.+...    .|...+...+..-.  ..+..+....+.+++|||++.++...++.|+..|++.        
T Consensus        82 ~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l~~~~q~~Ll~~le~g~~~v~r~g  161 (633)
T TIGR02442        82 EQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNLLDDHLVDVLLDAAAMGVNRVEREG  161 (633)
T ss_pred             ccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhhCCHHHHHHHHHHHhcCCEEEEECC
Confidence               234554433321    11111222221100  0111111346789999999999999999999999853        


Q ss_pred             -----cCCcEEEEeeCCC-CCCChhhhcccce-eeecCCC-HHHHHHHHHHHH---------------------------
Q 020071          139 -----SNSTRFALACNVS-SKIIEPIQSRCAI-VRFSRLS-DEEILSRLMVVV---------------------------  183 (331)
Q Consensus       139 -----~~~~~~I~~~~~~-~~l~~~l~sr~~~-i~~~~~~-~~~~~~~l~~~~---------------------------  183 (331)
                           +.++.+|.++|.. ..+.+.+.+|+.. +.+.++. .++..+++....                           
T Consensus       162 ~~~~~~~~~~lIat~np~eg~l~~~L~dR~~l~i~v~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~a  241 (633)
T TIGR02442       162 LSVSHPARFVLIGTMNPEEGDLRPQLLDRFGLCVDVAAPRDPEERVEIIRRRLAFDADPEAFAARWAAEQEELRNRIARA  241 (633)
T ss_pred             ceeeecCCeEEEEecCCCCCCCCHHHHhhcceEEEccCCCchHHHHHHHHHHHhhccCcHHHHHHhhhhHHHHHHHHHHH
Confidence                 2346677766643 4678899999853 4555443 333333332211                           


Q ss_pred             --HhcCCCCCHHHHHHHHHhc---CC-CHHHHHHHHHHH-----hhCCCccchhhhhhh
Q 020071          184 --QEEKVPYVPEGLEAIIFTA---DG-DMRQALNNLQAT-----YSGFRFVNQENVFKV  231 (331)
Q Consensus       184 --~~~~~~i~~~~~~~l~~~~---~g-~~r~~~~~l~~~-----~~~~~~i~~~~v~~~  231 (331)
                        ....+.++++.+++++..+   +- .+|..+..++.+     ..+...++.+++.++
T Consensus       242 r~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A  300 (633)
T TIGR02442       242 RSLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREA  300 (633)
T ss_pred             HHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHH
Confidence              0124678888888888765   22 466666666533     257778999998663

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.

>PF06144 DNA_pol3_delta: DNA polymerase III, delta subunit; InterPro: IPR010372 DNA polymerase III, delta subunit (2

Probab=99.44  E-value=4.3e-13  Score=108.56  Aligned_cols=162  Identities=13%  Similarity=0.197  Sum_probs=117.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC-CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCC----CCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN-YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEA----DSM  123 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~----d~l  123 (331)
                      .+|||+.-.-+...++.+.+.+.... ...++..++..+.    ...+.+..+.+.++   ++++++|+|.++    +..
T Consensus         1 Yll~G~d~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~----~~~~l~~~~~s~sl---F~~~klvii~~~~~l~~~~   73 (172)
T PF06144_consen    1 YLLYGEDSFLIEEYIKKIRKALIKKDFDDFNVIVFDGSED----DIDELLEELQSPSL---FGDKKLVIIKNAPFLKDKL   73 (172)
T ss_dssp             EEEEES-HHHHHHHHHHHHHHHHTTTEEEEEEEE-STTS-----HHH-HTTTSTTTTS---SSSEEEEEEE-----TT-S
T ss_pred             CEEEeCcHHHHHHHHHHHHHHhhcCCCccceEEEEccccC----cHHHHHHHHhcCCc---cCCCeEEEEecCccccccc
Confidence            47999998888888899888854332 2234444444433    33345555566665   889999999999    556


Q ss_pred             CHHHHHHHHHHHHHhcCCcEEEEeeC-CC---CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 020071          124 TAGAQQALRRTMEIYSNSTRFALACN-VS---SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAII  199 (331)
Q Consensus       124 ~~~~~~~Ll~~le~~~~~~~~I~~~~-~~---~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~  199 (331)
                      ..+..+.|.+++++|++++.+|+.++ ..   .++.+.+.+.+.++.|.+++..++..|++.++++.|+.++++++++|+
T Consensus        74 ~~~~~~~l~~~l~~~~~~~~lii~~~~~~~~~~k~~k~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~i~~~a~~~L~  153 (172)
T PF06144_consen   74 KKKEIKALIEYLSNPPPDCILIIFSEEKLDKRKKLYKALKKQAIVIECKKPKEQELPRWIKERAKKNGLKIDPDAAQYLI  153 (172)
T ss_dssp             -TTHHHHHHHHTTT--SSEEEEEEES-S--HHHHHHHHHTTTEEEEEE----TTTHHHHHHHHHHHTT-EE-HHHHHHHH
T ss_pred             cHHHHHHHHHHHhCCCCCEEEEEEeCCchhhhhhHHHHHhcccceEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            67788999999999999999998887 33   256788888899999999999999999999999999999999999999


Q ss_pred             HhcCCCHHHHHHHHHHHh
Q 020071          200 FTADGDMRQALNNLQATY  217 (331)
Q Consensus       200 ~~~~g~~r~~~~~l~~~~  217 (331)
                      ...++|++.+.+++++++
T Consensus       154 ~~~~~d~~~l~~EleKL~  171 (172)
T PF06144_consen  154 ERVGNDLSLLQNELEKLS  171 (172)
T ss_dssp             HHHTT-HHHHHHHHHHHH
T ss_pred             HHhChHHHHHHHHHHHhc
Confidence            999999999999999864

7.7.7 from EC) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction []. The delta subunit is also known as HolA.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3GLG_F 1XXH_A 1JQL_B 3GLF_F 1JQJ_C 3GLI_F.

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=99.43  E-value=6.5e-12  Score=106.65  Aligned_cols=175  Identities=19%  Similarity=0.317  Sum_probs=107.3

Q ss_pred             cccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH---------------
Q 020071           27 IVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID---------------   91 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~---------------   91 (331)
                      ++|++..++.|.+.+.++...+++++||.|+|||++++.+.+.+...+.  ..+.+.........               
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~--~~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKGY--KVVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--EE--CCCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCC--cEEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            5799999999999999987667999999999999999999998843221  11222221111111               


Q ss_pred             --------------------------hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC------HHHHHHHHHHHHH--
Q 020071           92 --------------------------VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT------AGAQQALRRTMEI--  137 (331)
Q Consensus        92 --------------------------~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~------~~~~~~Ll~~le~--  137 (331)
                                                .+...++....      .+.+-+|+|||++.+.      ......|.++++.  
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~------~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~  152 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKK------KGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLL  152 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHH------CHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH--
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHh------cCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhcc
Confidence                                      11111111111      1234899999999988      4456677777776  


Q ss_pred             hcCCcEEEEeeCCC------CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCC--CHHHHHHHHHhcCCCHHHH
Q 020071          138 YSNSTRFALACNVS------SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY--VPEGLEAIIFTADGDMRQA  209 (331)
Q Consensus       138 ~~~~~~~I~~~~~~------~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i--~~~~~~~l~~~~~g~~r~~  209 (331)
                      ...++.+|+++...      ..-...+..|+..+.++|++.++..+++...+... ..+  +++.++.+...+||+|+.+
T Consensus       153 ~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l  231 (234)
T PF01637_consen  153 SQQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYL  231 (234)
T ss_dssp             --TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHH
T ss_pred             ccCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHH
Confidence            23455566665442      12334566788889999999999999999987766 555  9999999999999999976


Q ss_pred             H
Q 020071          210 L  210 (331)
Q Consensus       210 ~  210 (331)
                      .
T Consensus       232 ~  232 (234)
T PF01637_consen  232 Q  232 (234)
T ss_dssp             H
T ss_pred             h
Confidence            4

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.43  E-value=1.2e-11  Score=121.04  Aligned_cols=193  Identities=15%  Similarity=0.182  Sum_probs=131.2

Q ss_pred             CCCCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHH
Q 020071           22 TKVCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKM   99 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~   99 (331)
                      ..|++++|++..+..+.+.++.-  ...+++|+|++|||||++|++++......  +.+++.++|..... +.+...+-.
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~--~~~~v~i~c~~~~~-~~~~~~lfg  449 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRN--NRRMVKMNCAAMPA-GLLESDLFG  449 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCC--CCCeEEEecccCCh-hHhhhhhcC
Confidence            46889999999998887666542  22249999999999999999999865322  56888888876421 222221100


Q ss_pred             HHhccc---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------C
Q 020071          100 FAQKKV---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------S  152 (331)
Q Consensus       100 ~~~~~~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~  152 (331)
                      .....+         .+....+++++|||++.++.+.|..|++++++..           .++++|++++..       .
T Consensus       450 ~~~~~~~g~~~~~~g~le~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~l~~~~~~~  529 (686)
T PRK15429        450 HERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADR  529 (686)
T ss_pred             cccccccccccchhhHHHhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCCHHHHHHcC
Confidence            000000         0112346899999999999999999999998632           467888888653       2


Q ss_pred             CCChhhhccc--ceeeecCCCH--HHHHHHH----HHHHHhcCC---CCCHHHHHHHHHhc-CCCHHHHHHHHHHHh
Q 020071          153 KIIEPIQSRC--AIVRFSRLSD--EEILSRL----MVVVQEEKV---PYVPEGLEAIIFTA-DGDMRQALNNLQATY  217 (331)
Q Consensus       153 ~l~~~l~sr~--~~i~~~~~~~--~~~~~~l----~~~~~~~~~---~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~  217 (331)
                      .+...+-.|.  ..+.++|+.+  +++..++    .+.+.+.+.   .+++++++.|..+. .||+|++.+.++.++
T Consensus       530 ~f~~~L~~~l~~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~~s~~al~~L~~y~WPGNvrEL~~~i~~a~  606 (686)
T PRK15429        530 EFRSDLYYRLNVFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAV  606 (686)
T ss_pred             cccHHHHhccCeeEEeCCChhhhHhHHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCCcHHHHHHHHHHHH
Confidence            3444455553  4467888876  4444443    344444343   47899999998876 799999999998875

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

Probab=99.43  E-value=9.9e-13  Score=109.91  Aligned_cols=186  Identities=19%  Similarity=0.260  Sum_probs=124.9

Q ss_pred             hhhcCCCCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           16 VEKYRPTKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        16 ~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      .+|-.-.++.|+-|-+..+++++..++-           | +.|. +++||+||+|||.+|+++++..     ...|..+
T Consensus       176 ~eKaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqT-----SATFlRv  250 (440)
T KOG0726|consen  176 VEKAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQT-----SATFLRV  250 (440)
T ss_pred             cccCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhccc-----chhhhhh
Confidence            3454444899999999999999988752           3 2233 9999999999999999999987     4555555


Q ss_pred             ecCCC------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHH-----hcC
Q 020071           83 NASDD------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEI-----YSN  140 (331)
Q Consensus        83 ~~~~~------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~-----~~~  140 (331)
                      -+++.      .+...++++++.+....       +.++||||+|...           .+.|..++.+|..     ...
T Consensus       251 vGseLiQkylGdGpklvRqlF~vA~e~a-------pSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrg  323 (440)
T KOG0726|consen  251 VGSELIQKYLGDGPKLVRELFRVAEEHA-------PSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRG  323 (440)
T ss_pred             hhHHHHHHHhccchHHHHHHHHHHHhcC-------CceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccccC
Confidence            44332      35556777776666544       5699999999774           2456666666653     345


Q ss_pred             CcEEEEeeCCCCCCChhhhccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHH----HhcCCCHHHHHHH
Q 020071          141 STRFALACNVSSKIIEPIQSRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPE-GLEAII----FTADGDMRQALNN  212 (331)
Q Consensus       141 ~~~~I~~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~----~~~~g~~r~~~~~  212 (331)
                      ++.+|++||..+.+.|++.+-.   ..+.|+.|+...-+.++.-...+  ..+.++ .++.++    ..+|.|+..+...
T Consensus       324 DvKvimATnrie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~--Mtl~~dVnle~li~~kddlSGAdIkAictE  401 (440)
T KOG0726|consen  324 DVKVIMATNRIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSR--MTLAEDVNLEELIMTKDDLSGADIKAICTE  401 (440)
T ss_pred             CeEEEEecccccccCHhhcCCCccccccccCCCchhhhceeEEEeecc--cchhccccHHHHhhcccccccccHHHHHHH
Confidence            7889999999999999998754   34799888877666665432211  122222 133333    3455566655555


Q ss_pred             HHH
Q 020071          213 LQA  215 (331)
Q Consensus       213 l~~  215 (331)
                      .-.
T Consensus       402 aGl  404 (440)
T KOG0726|consen  402 AGL  404 (440)
T ss_pred             HhH
Confidence            433

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

Probab=99.40  E-value=8.6e-12  Score=102.27  Aligned_cols=161  Identities=20%  Similarity=0.254  Sum_probs=110.5

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHc-------------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARD-------------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      ..+|....+++-+-|-+..++.++..++-             ..+..+|+|||||+|||.+|++++....|     .|+.
T Consensus       137 mVeKvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c-----~fir  211 (404)
T KOG0728|consen  137 MVEKVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDC-----TFIR  211 (404)
T ss_pred             hhhhCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcce-----EEEE
Confidence            34453333343344567777777776542             23344999999999999999999998843     4666


Q ss_pred             eecCCC------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHH-----Hhc
Q 020071           82 LNASDD------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTME-----IYS  139 (331)
Q Consensus        82 ~~~~~~------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le-----~~~  139 (331)
                      +++++.      .+...+++++-.+.+.       -+.++|.||+|.+.           .+.|..++.++.     +..
T Consensus       212 vsgselvqk~igegsrmvrelfvmareh-------apsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeat  284 (404)
T KOG0728|consen  212 VSGSELVQKYIGEGSRMVRELFVMAREH-------APSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEAT  284 (404)
T ss_pred             echHHHHHHHhhhhHHHHHHHHHHHHhc-------CCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccc
Confidence            665542      1223444444443333       36799999999883           245666666665     345


Q ss_pred             CCcEEEEeeCCCCCCChhhhccc---ceeeecCCCHHHHHHHHHHHHHhcC
Q 020071          140 NSTRFALACNVSSKIIEPIQSRC---AIVRFSRLSDEEILSRLMVVVQEEK  187 (331)
Q Consensus       140 ~~~~~I~~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~  187 (331)
                      .+..+|.++|...-+.+++.+-+   ..++|+||+.+...++++-..++-+
T Consensus       285 knikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmn  335 (404)
T KOG0728|consen  285 KNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMN  335 (404)
T ss_pred             cceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhc
Confidence            68889999999999999998754   3489999999998888877665544

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

Probab=99.40  E-value=4.5e-12  Score=118.43  Aligned_cols=168  Identities=20%  Similarity=0.176  Sum_probs=115.0

Q ss_pred             CCCCccccCHHHHHHHHHHHH----------cCCC--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC--
Q 020071           22 TKVCDIVGNLDAVARLGIIAR----------DGNM--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD--   87 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~----------~~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--   87 (331)
                      -+|+|+=|-++++..+...+.          +|-.  ..+|||||||||||.+|+++|.++     ...|..+.+++.  
T Consensus       669 V~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc-----sL~FlSVKGPELLN  743 (953)
T KOG0736|consen  669 VSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC-----SLNFLSVKGPELLN  743 (953)
T ss_pred             cchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc-----eeeEEeecCHHHHH
Confidence            489999999999998877654          3322  349999999999999999999988     777887776654  


Q ss_pred             ----CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH-------------HHHHHHHHHHH----hcCCcEEEE
Q 020071           88 ----RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG-------------AQQALRRTMEI----YSNSTRFAL  146 (331)
Q Consensus        88 ----~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~-------------~~~~Ll~~le~----~~~~~~~I~  146 (331)
                          .+.+.+|+.++.+.       .+.+.|||+||+|.+.+.             ....|+.=|+.    +...+-+|.
T Consensus       744 MYVGqSE~NVR~VFerAR-------~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViG  816 (953)
T KOG0736|consen  744 MYVGQSEENVREVFERAR-------SAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIG  816 (953)
T ss_pred             HHhcchHHHHHHHHHHhh-------ccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEEe
Confidence                23345666655544       345789999999999542             23455555553    334556677


Q ss_pred             eeCCCCCCChhhhc--ccce-eeecCCCHHHHH-HHHHHHHHhcCCCCCHH-HHHHHHHhcC
Q 020071          147 ACNVSSKIIEPIQS--RCAI-VRFSRLSDEEIL-SRLMVVVQEEKVPYVPE-GLEAIIFTAD  203 (331)
Q Consensus       147 ~~~~~~~l~~~l~s--r~~~-i~~~~~~~~~~~-~~l~~~~~~~~~~i~~~-~~~~l~~~~~  203 (331)
                      +||.+.-+.|++.+  |+.. +.+.|..+.+-+ ++|+..-++  +.++++ .+..+++.+.
T Consensus       817 ATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrk--FkLdedVdL~eiAk~cp  876 (953)
T KOG0736|consen  817 ATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRK--FKLDEDVDLVEIAKKCP  876 (953)
T ss_pred             cCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHH--ccCCCCcCHHHHHhhCC
Confidence            78889999999987  5544 466776665544 344444333  334443 3667777664

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

Probab=99.39  E-value=1e-11  Score=115.53  Aligned_cols=197  Identities=19%  Similarity=0.226  Sum_probs=133.7

Q ss_pred             CCCCccccCHHHHHHHHHHHHc-----------CCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC--
Q 020071           22 TKVCDIVGNLDAVARLGIIARD-----------GNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD--   87 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~-----------~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--   87 (331)
                      .+|.|+.|.+++++.+...+.-           +++|. ++++||||+|||.+|++++.+.     +.+|..+++++.  
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA-----~VPFf~iSGS~FVe  221 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----GVPFFSISGSDFVE  221 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc-----CCCceeccchhhhh
Confidence            4899999999999987776542           35665 9999999999999999999998     778888777664  


Q ss_pred             ----CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHhc--CCcEEEEe
Q 020071           88 ----RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIYS--NSTRFALA  147 (331)
Q Consensus        88 ----~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~~--~~~~~I~~  147 (331)
                          .+...+++....+....       +.+++|||+|....              ...|.|+--|+...  ..+.+|.+
T Consensus       222 mfVGvGAsRVRdLF~qAkk~a-------P~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaa  294 (596)
T COG0465         222 MFVGVGASRVRDLFEQAKKNA-------PCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAA  294 (596)
T ss_pred             hhcCCCcHHHHHHHHHhhccC-------CCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEec
Confidence                34457777777665443       46999999998743              23455555555444  34556666


Q ss_pred             eCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC----CHHHHHHHHHHHh--h
Q 020071          148 CNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG----DMRQALNNLQATY--S  218 (331)
Q Consensus       148 ~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g----~~r~~~~~l~~~~--~  218 (331)
                      ||.++-+.+++.+  |+ ..+....|+-....++++-.++...+. ++-.+..+++.+.|    |+-.++|+..-.+  .
T Consensus       295 TNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~-~~Vdl~~iAr~tpGfsGAdL~nl~NEAal~aar~  373 (596)
T COG0465         295 TNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLA-EDVDLKKIARGTPGFSGADLANLLNEAALLAARR  373 (596)
T ss_pred             CCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCC-CcCCHHHHhhhCCCcccchHhhhHHHHHHHHHHh
Confidence            7777778788865  33 456788888888888888555443322 11224447776644    5555555543332  4


Q ss_pred             CCCccchhhhhhh
Q 020071          219 GFRFVNQENVFKV  231 (331)
Q Consensus       219 ~~~~i~~~~v~~~  231 (331)
                      +...|+..++.+.
T Consensus       374 n~~~i~~~~i~ea  386 (596)
T COG0465         374 NKKEITMRDIEEA  386 (596)
T ss_pred             cCeeEeccchHHH
Confidence            5556776666543

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=99.39  E-value=1.2e-10  Score=99.73  Aligned_cols=217  Identities=17%  Similarity=0.119  Sum_probs=138.3

Q ss_pred             hhhcCCCCCCccccCHHHHHHHHHH---HH---cCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC----CCCceEEeecC
Q 020071           16 VEKYRPTKVCDIVGNLDAVARLGII---AR---DGNMPNLILAGPPGTGKTTSILALAHELLGPN----YREAVMELNAS   85 (331)
Q Consensus        16 ~~~~~p~~~~~~ig~~~~~~~l~~~---l~---~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~   85 (331)
                      .++.+-..=+.+||++++.+.+.+.   +.   ..++|+++|+|++|.|||++++.|.+......    ...+++.+..+
T Consensus        25 ~eRI~~i~~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P  104 (302)
T PF05621_consen   25 EERIAYIRADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMP  104 (302)
T ss_pred             HHHHHHHhcCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecC
Confidence            3343333445688988887755444   43   35778899999999999999999998764321    12356666654


Q ss_pred             CCCChHhHHHHHHHHHhcccC---------------CCCCCceEEEEeCCCCC---CHHHHHHHHHHHHHhcC--CcEEE
Q 020071           86 DDRGIDVVRNKIKMFAQKKVT---------------LPPGKHKVVVLDEADSM---TAGAQQALRRTMEIYSN--STRFA  145 (331)
Q Consensus        86 ~~~~~~~i~~~i~~~~~~~~~---------------~~~~~~~vviide~d~l---~~~~~~~Ll~~le~~~~--~~~~I  145 (331)
                      ...+...+...+-.....|+.               +..-+-+++||||+|.+   +...|..+++.+.....  .+.+|
T Consensus       105 ~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV  184 (302)
T PF05621_consen  105 PEPDERRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIV  184 (302)
T ss_pred             CCCChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeE
Confidence            443333333333222222221               01245799999999986   33445566555554332  34455


Q ss_pred             EeeCCC----CCCChhhhcccceeeecCCCH-HHHHHHHHHHHHhc-----CCCCCHHHHHHHHHhcCCCHHHHHHHHHH
Q 020071          146 LACNVS----SKIIEPIQSRCAIVRFSRLSD-EEILSRLMVVVQEE-----KVPYVPEGLEAIIFTADGDMRQALNNLQA  215 (331)
Q Consensus       146 ~~~~~~----~~l~~~l~sr~~~i~~~~~~~-~~~~~~l~~~~~~~-----~~~i~~~~~~~l~~~~~g~~r~~~~~l~~  215 (331)
                      ++....    -.-.+.+.+|+..+.+++... ++....+......-     .---+++.+.+|...++|.++.+.+++..
T Consensus       185 ~vGt~~A~~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~ll~~  264 (302)
T PF05621_consen  185 GVGTREAYRALRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRLLNA  264 (302)
T ss_pred             EeccHHHHHHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHHHHH
Confidence            554331    245689999999999988876 45666665543321     11125677899999999999999999976


Q ss_pred             Hh-----hCCCccchhhhhhhc
Q 020071          216 TY-----SGFRFVNQENVFKVC  232 (331)
Q Consensus       216 ~~-----~~~~~i~~~~v~~~~  232 (331)
                      ++     ++.+.||.+.+..+-
T Consensus       265 aA~~AI~sG~E~It~~~l~~~~  286 (302)
T PF05621_consen  265 AAIAAIRSGEERITREILDKID  286 (302)
T ss_pred             HHHHHHhcCCceecHHHHhhCC
Confidence            64     577788888877643

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

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

Probab=99.39  E-value=2.8e-11  Score=113.65  Aligned_cols=204  Identities=21%  Similarity=0.183  Sum_probs=138.2

Q ss_pred             CCCccccCHHHHHHHHHHHHcCC--CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           23 KVCDIVGNLDAVARLGIIARDGN--MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      .+.+++|....+..+.+.+..-.  ..+++++|++|+||+++|+.++......  ..+++.++|... ..+.+...+-..
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~--~~~~i~i~c~~~-~~~~~~~~lfg~  212 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPRA--KAPFIALNMAAI-PKDLIESELFGH  212 (469)
T ss_pred             ccccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcCCCC--CCCeEeeeCCCC-CHHHHHHHhcCC
Confidence            46789999888877766665422  1238999999999999999999975432  568899999775 222222222110


Q ss_pred             Hhccc---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CC
Q 020071          101 AQKKV---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SK  153 (331)
Q Consensus       101 ~~~~~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~  153 (331)
                      ....+         .+....++.++|||++.|+...|..|++++++..           .++++|++++..       ..
T Consensus       213 ~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~  292 (469)
T PRK10923        213 EKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQEGK  292 (469)
T ss_pred             CCCCCCCCCcCCCCCeeECCCCEEEEeccccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEEEEEeCCCCHHHHHHcCC
Confidence            00000         0112346789999999999999999999998532           356888888653       24


Q ss_pred             CChhhhccc--ceeeecCCCH--HHHHHHHHHH----HHhcCC---CCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hC
Q 020071          154 IIEPIQSRC--AIVRFSRLSD--EEILSRLMVV----VQEEKV---PYVPEGLEAIIFTA-DGDMRQALNNLQATY--SG  219 (331)
Q Consensus       154 l~~~l~sr~--~~i~~~~~~~--~~~~~~l~~~----~~~~~~---~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~  219 (331)
                      +.+.+..|+  ..+.++|+.+  +++..++...    +.+.+.   .+++++++.|..+. .||+|++.+.++.++  ..
T Consensus       293 ~~~~L~~~l~~~~i~~PpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~i~~~~~~~~  372 (469)
T PRK10923        293 FREDLFHRLNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRWLTVMAA  372 (469)
T ss_pred             chHHHHHHhcceeecCCCcccchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC
Confidence            557777775  4567777775  4444443333    333332   47999999999876 799999999998875  34


Q ss_pred             CCccchhhhh
Q 020071          220 FRFVNQENVF  229 (331)
Q Consensus       220 ~~~i~~~~v~  229 (331)
                      +..|+.+++-
T Consensus       373 ~~~i~~~~l~  382 (469)
T PRK10923        373 GQEVLIQDLP  382 (469)
T ss_pred             CCcccHHHCc
Confidence            4567776653

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

Probab=99.38  E-value=2.1e-11  Score=113.20  Aligned_cols=170  Identities=20%  Similarity=0.190  Sum_probs=124.2

Q ss_pred             CCCCccccCHHHHHHHHHHHHcC------------CC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-
Q 020071           22 TKVCDIVGNLDAVARLGIIARDG------------NM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-   87 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~------------~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-   87 (331)
                      ..|+|+-|-.+++..+...+...            +. ..+|+|||||||||.+|.+++...     +..|+.+.+++. 
T Consensus       664 i~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~-----~~~fisvKGPElL  738 (952)
T KOG0735|consen  664 IRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNS-----NLRFISVKGPELL  738 (952)
T ss_pred             CCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhC-----CeeEEEecCHHHH
Confidence            57899999999999988887642            11 239999999999999999999977     788888877653 


Q ss_pred             ---C--ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHH--hcCCcEEEEeeC
Q 020071           88 ---R--GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEI--YSNSTRFALACN  149 (331)
Q Consensus        88 ---~--~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~--~~~~~~~I~~~~  149 (331)
                         +  +.+.+++++..+.       ...+.++|+||+|.+.+           ...|.|+.-|+.  .-.++.++.+|.
T Consensus       739 ~KyIGaSEq~vR~lF~rA~-------~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTs  811 (952)
T KOG0735|consen  739 SKYIGASEQNVRDLFERAQ-------SAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATS  811 (952)
T ss_pred             HHHhcccHHHHHHHHHHhh-------ccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecC
Confidence               1  2234555554433       45678999999998843           457888887773  234555666667


Q ss_pred             CCCCCChhhhccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC
Q 020071          150 VSSKIIEPIQSRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG  204 (331)
Q Consensus       150 ~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  204 (331)
                      .++.+.|++.+-+   ..+.+++|++.+..++++...+...+. ++..++.++..+.|
T Consensus       812 RpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~-~~vdl~~~a~~T~g  868 (952)
T KOG0735|consen  812 RPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKD-TDVDLECLAQKTDG  868 (952)
T ss_pred             CccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCc-cccchHHHhhhcCC
Confidence            7788888887743   346899999999999998876544322 34457888887765

>PHA02244 ATPase-like protein

Probab=99.35  E-value=7.3e-12  Score=110.20  Aligned_cols=128  Identities=20%  Similarity=0.176  Sum_probs=88.9

Q ss_pred             HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH---HHHHhcccCCCCCCc
Q 020071           36 RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI---KMFAQKKVTLPPGKH  112 (331)
Q Consensus        36 ~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i---~~~~~~~~~~~~~~~  112 (331)
                      .+.+++..+.  +++|+||+|+|||++|+++++.+     +.+++.++.... .. .+...+   ..+...++.....++
T Consensus       111 ri~r~l~~~~--PVLL~GppGtGKTtLA~aLA~~l-----g~pfv~In~l~d-~~-~L~G~i~~~g~~~dgpLl~A~~~G  181 (383)
T PHA02244        111 DIAKIVNANI--PVFLKGGAGSGKNHIAEQIAEAL-----DLDFYFMNAIMD-EF-ELKGFIDANGKFHETPFYEAFKKG  181 (383)
T ss_pred             HHHHHHhcCC--CEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEecChH-HH-hhcccccccccccchHHHHHhhcC
Confidence            4455555554  49999999999999999999997     666777763211 00 000000   001111111112356


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHH-----------hcCCcEEEEeeCCC-----------CCCChhhhcccceeeecCC
Q 020071          113 KVVVLDEADSMTAGAQQALRRTMEI-----------YSNSTRFALACNVS-----------SKIIEPIQSRCAIVRFSRL  170 (331)
Q Consensus       113 ~vviide~d~l~~~~~~~Ll~~le~-----------~~~~~~~I~~~~~~-----------~~l~~~l~sr~~~i~~~~~  170 (331)
                      .+++|||++.++++.+..|...+++           +++++++|+++|..           ..+.+++++|+..+.|..+
T Consensus       182 gvLiLDEId~a~p~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllDRFv~I~~dyp  261 (383)
T PHA02244        182 GLFFIDEIDASIPEALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLDRFAPIEFDYD  261 (383)
T ss_pred             CEEEEeCcCcCCHHHHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHHHHhhcEEeeCCCC
Confidence            7999999999999999999999962           34688999999872           5678999999999999887


Q ss_pred             CH
Q 020071          171 SD  172 (331)
Q Consensus       171 ~~  172 (331)
                      ++
T Consensus       262 ~~  263 (383)
T PHA02244        262 EK  263 (383)
T ss_pred             cH
Confidence            74

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

Probab=99.35  E-value=3.4e-11  Score=107.61  Aligned_cols=157  Identities=20%  Similarity=0.208  Sum_probs=107.0

Q ss_pred             hhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHh---
Q 020071           16 VEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDV---   92 (331)
Q Consensus        16 ~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~---   92 (331)
                      ..+.+-.....++|+++.+..+...+..|.  |++|.||||+|||++|+.+++.+     +.+++.+++.......+   
T Consensus        15 ~~~~~~~~~~~~~g~~~~~~~~l~a~~~~~--~vll~G~PG~gKT~la~~lA~~l-----~~~~~~i~~t~~l~p~d~~G   87 (329)
T COG0714          15 LGKIRSELEKVVVGDEEVIELALLALLAGG--HVLLEGPPGVGKTLLARALARAL-----GLPFVRIQCTPDLLPSDLLG   87 (329)
T ss_pred             HHHHHhhcCCeeeccHHHHHHHHHHHHcCC--CEEEECCCCccHHHHHHHHHHHh-----CCCeEEEecCCCCCHHHhcC
Confidence            333333334458899999988877777776  69999999999999999999999     67888888775533322   


Q ss_pred             ---HHHHHH-----HHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh------------cCCcEEEEeeC---
Q 020071           93 ---VRNKIK-----MFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY------------SNSTRFALACN---  149 (331)
Q Consensus        93 ---i~~~i~-----~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~------------~~~~~~I~~~~---  149 (331)
                         +.....     .+...+..  ..-..++++||+++.+++.+++|+..|++.            +....+|.++|   
T Consensus        88 ~~~~~~~~~~~~~~~~~~gpl~--~~~~~ill~DEInra~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~viaT~Np~e  165 (329)
T COG0714          88 TYAYAALLLEPGEFRFVPGPLF--AAVRVILLLDEINRAPPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIATQNPGE  165 (329)
T ss_pred             chhHhhhhccCCeEEEecCCcc--cccceEEEEeccccCCHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEEccCccc
Confidence               221110     11111110  111249999999999999999999999961            12334555556   


Q ss_pred             --CCCCCChhhhccc-ceeeecCCCHHHHHHHHHH
Q 020071          150 --VSSKIIEPIQSRC-AIVRFSRLSDEEILSRLMV  181 (331)
Q Consensus       150 --~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~  181 (331)
                        ....+++++++|| ..+.+..|+.++....+..
T Consensus       166 ~~g~~~l~eA~ldRf~~~~~v~yp~~~~e~~~i~~  200 (329)
T COG0714         166 YEGTYPLPEALLDRFLLRIYVDYPDSEEEERIILA  200 (329)
T ss_pred             cCCCcCCCHHHHhhEEEEEecCCCCchHHHHHHHH
Confidence              3457899999999 6678887855544444433

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.35  E-value=1.2e-10  Score=97.99  Aligned_cols=118  Identities=20%  Similarity=0.247  Sum_probs=95.5

Q ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC------------CCCCChhhhcccceeeecCCCHHHHHHHH
Q 020071          112 HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV------------SSKIIEPIQSRCAIVRFSRLSDEEILSRL  179 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~------------~~~l~~~l~sr~~~i~~~~~~~~~~~~~l  179 (331)
                      +.|+||||+|.|.-+....|.+.+|+--.. ++|+++|.            +..++-.+..|..++...|++.+++.++|
T Consensus       289 pGVLFIDEvHMLDIEcFsFlNrAlE~d~~P-iiimaTNrgit~iRGTn~~SphGiP~D~lDR~lII~t~py~~~d~~~IL  367 (454)
T KOG2680|consen  289 PGVLFIDEVHMLDIECFSFLNRALENDMAP-IIIMATNRGITRIRGTNYRSPHGIPIDLLDRMLIISTQPYTEEDIKKIL  367 (454)
T ss_pred             cceEEEeeehhhhhHHHHHHHHHhhhccCc-EEEEEcCCceEEeecCCCCCCCCCcHHHhhhhheeecccCcHHHHHHHH
Confidence            679999999999999999999999963322 23344433            45788899999999999999999999999


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh-----hCCCccchhhhhh
Q 020071          180 MVVVQEEKVPYVPEGLEAIIFTA-DGDMRQALNNLQATY-----SGFRFVNQENVFK  230 (331)
Q Consensus       180 ~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~-----~~~~~i~~~~v~~  230 (331)
                      +-+|..+++.+++++++.|.... ..++|-+++++....     .....+..+++..
T Consensus       368 ~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r  424 (454)
T KOG2680|consen  368 RIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIER  424 (454)
T ss_pred             HhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHH
Confidence            99999999999999999999875 458999999986432     3445566666655

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.34  E-value=8.8e-11  Score=109.60  Aligned_cols=203  Identities=15%  Similarity=0.172  Sum_probs=136.8

Q ss_pred             CCCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           23 KVCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      .+.+++|....+..+...+..-  ...+++++|++|+||+++|+.+.......  ..+++.++|.... .+.+...+-..
T Consensus       137 ~~~~lig~s~~~~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~--~~~~v~v~c~~~~-~~~~~~~lfg~  213 (445)
T TIGR02915       137 ALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLSDRK--DKRFVAINCAAIP-ENLLESELFGY  213 (445)
T ss_pred             cccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhCCcC--CCCeEEEECCCCC-hHHHHHHhcCC
Confidence            5667899888888777776542  22248999999999999999999865322  4578899988752 22222222110


Q ss_pred             Hhccc---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CC
Q 020071          101 AQKKV---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SK  153 (331)
Q Consensus       101 ~~~~~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~  153 (331)
                      ....+         .+....+++++|||++.|+...|..|++++++..           .++++|++++..       ..
T Consensus       214 ~~~~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~  293 (445)
T TIGR02915       214 EKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGT  293 (445)
T ss_pred             CCCCcCCCccCCCCceeECCCCEEEEechhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCCHHHHHHcCC
Confidence            00000         0112457899999999999999999999998532           367888888653       34


Q ss_pred             CChhhhccc--ceeeecCCCH--HHHHH----HHHHHHHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hC
Q 020071          154 IIEPIQSRC--AIVRFSRLSD--EEILS----RLMVVVQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATY--SG  219 (331)
Q Consensus       154 l~~~l~sr~--~~i~~~~~~~--~~~~~----~l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~  219 (331)
                      +.+.+-.|+  ..+.++|+.+  +++..    ++.+.+...+   ..+++++++.|..+. .||+|++.+.++.++  ..
T Consensus       294 ~~~~L~~~l~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~i~~a~~~~~  373 (445)
T TIGR02915       294 FREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMAE  373 (445)
T ss_pred             ccHHHHHHhccceecCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCC
Confidence            455565664  3467777765  33333    3333333333   458999999999887 899999999998775  33


Q ss_pred             CCccchhhh
Q 020071          220 FRFVNQENV  228 (331)
Q Consensus       220 ~~~i~~~~v  228 (331)
                      ...|+.+++
T Consensus       374 ~~~i~~~~l  382 (445)
T TIGR02915       374 GNQITAEDL  382 (445)
T ss_pred             CCcccHHHc
Confidence            446776654

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).

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

Probab=99.33  E-value=3e-11  Score=108.03  Aligned_cols=176  Identities=23%  Similarity=0.199  Sum_probs=123.6

Q ss_pred             hhcCCCCCCccccCHHHHHHHHHHHHc---------C-CCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           17 EKYRPTKVCDIVGNLDAVARLGIIARD---------G-NMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        17 ~~~~p~~~~~~ig~~~~~~~l~~~l~~---------~-~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      +.-++-.|+|+.|.+.+.+.+...+.-         | +.|  .+|+.||||+|||.+++++|.+.     ...|..+.+
T Consensus       145 ~~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~rglLLfGPpgtGKtmL~~aiAsE~-----~atff~iSa  219 (428)
T KOG0740|consen  145 DTLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVRGLLLFGPPGTGKTMLAKAIATES-----GATFFNISA  219 (428)
T ss_pred             ccCCcccccCCcchhhHHHHhhhhhhhcccchHhhhccccccchhheecCCCCchHHHHHHHHhhh-----cceEeeccH
Confidence            345667899999998888877766532         1 112  28999999999999999999998     677777776


Q ss_pred             CCCCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HH-HHHHHHHHH---HhcCCcE
Q 020071           85 SDDRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GA-QQALRRTME---IYSNSTR  143 (331)
Q Consensus        85 ~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~-~~~Ll~~le---~~~~~~~  143 (331)
                      +...+      ...++.++.-+.       ...+.|+||||+|.+-.           .. .+.|+...-   .+.++++
T Consensus       220 ssLtsK~~Ge~eK~vralf~vAr-------~~qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvl  292 (428)
T KOG0740|consen  220 SSLTSKYVGESEKLVRALFKVAR-------SLQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVL  292 (428)
T ss_pred             HHhhhhccChHHHHHHHHHHHHH-------hcCCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCeEE
Confidence            54421      122333333222       33478999999998721           11 223333222   3445777


Q ss_pred             EEEeeCCCCCCChhhhcccce-eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC
Q 020071          144 FALACNVSSKIIEPIQSRCAI-VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG  204 (331)
Q Consensus       144 ~I~~~~~~~~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  204 (331)
                      +|.+||.+..+..+++.|++- +.++.|+.+....++.+...+.+..+.+..+..|++.+.|
T Consensus       293 vigaTN~P~e~Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Teg  354 (428)
T KOG0740|consen  293 VIGATNRPWELDEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEG  354 (428)
T ss_pred             EEecCCCchHHHHHHHHHhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcC
Confidence            888889999999999999865 4677777777777788888887778888899999988755

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.33  E-value=7.7e-11  Score=112.56  Aligned_cols=123  Identities=20%  Similarity=0.225  Sum_probs=85.7

Q ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHHHh---------------------cCCcEEEEeeCCC--CCCChhhhcccc---
Q 020071          110 GKHKVVVLDEADSMTAGAQQALRRTMEIY---------------------SNSTRFALACNVS--SKIIEPIQSRCA---  163 (331)
Q Consensus       110 ~~~~vviide~d~l~~~~~~~Ll~~le~~---------------------~~~~~~I~~~~~~--~~l~~~l~sr~~---  163 (331)
                      +++.+++|||++.|+...|..|++.|++.                     |.++++|++++..  ..+.+.+++|+.   
T Consensus       216 AngGtL~Ldei~~L~~~~q~~Ll~~L~~~~i~~~g~~e~~~~~~~~~~~ip~dvrvIa~~~~~~l~~l~~~l~~rf~~y~  295 (608)
T TIGR00764       216 AHKGVLYIDEIKTMPLEVQQYLLTALQDKKFPITGQSENSSGAMVRTEPVPCDFILVASGNLDDLEGMHPALRSRIRGYG  295 (608)
T ss_pred             CCCCEEEEEChHhCCHHHHHHHHHHHHhCcEEecCccccccccccCCCCCccceEEEEECCHHHHhhcCHHHHHHhcCCe
Confidence            45789999999999999999999999742                     2356788888753  578899999987   


Q ss_pred             e-eeec---CCCHHH---HHHHHHHHHHhcC--CCCCHHHHHHHHHhc----------CCCHHHHHHHHHHH---h--hC
Q 020071          164 I-VRFS---RLSDEE---ILSRLMVVVQEEK--VPYVPEGLEAIIFTA----------DGDMRQALNNLQAT---Y--SG  219 (331)
Q Consensus       164 ~-i~~~---~~~~~~---~~~~l~~~~~~~~--~~i~~~~~~~l~~~~----------~g~~r~~~~~l~~~---~--~~  219 (331)
                      + +.|.   |.+.+.   +..++.+.+++.|  ..++++++..+++.+          ..+.|++-++++.+   +  .+
T Consensus       296 v~v~~~~~~~~~~e~~~~~~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~  375 (608)
T TIGR00764       296 YEVYMKDTMPDTPENRDKLVQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSG  375 (608)
T ss_pred             EEEEeeccCCCCHHHHHHHHHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcC
Confidence            2 2333   333433   4556666666653  357899988887532          14578887777654   2  34


Q ss_pred             CCccchhhhhhhc
Q 020071          220 FRFVNQENVFKVC  232 (331)
Q Consensus       220 ~~~i~~~~v~~~~  232 (331)
                      ...|+.++|.+++
T Consensus       376 ~~~I~~ehV~~Ai  388 (608)
T TIGR00764       376 KVYVTAEHVLKAK  388 (608)
T ss_pred             CceecHHHHHHHH
Confidence            4578888887643

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

>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=99.32  E-value=1.9e-11  Score=97.83  Aligned_cols=121  Identities=17%  Similarity=0.217  Sum_probs=80.3

Q ss_pred             cccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcc
Q 020071           27 IVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKK  104 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~  104 (331)
                      ++|.+..+..+.+.++.-  ...+++|+|++|+||+.+|+++++....  ...+|+.+||... ..+.+...+-......
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r--~~~pfi~vnc~~~-~~~~~e~~LFG~~~~~   77 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSPR--KNGPFISVNCAAL-PEELLESELFGHEKGA   77 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCSTT--TTS-EEEEETTTS--HHHHHHHHHEBCSSS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhhc--ccCCeEEEehhhh-hcchhhhhhhcccccc
Confidence            578888888777776652  2234999999999999999999995432  3568999999876 3333333221111110


Q ss_pred             c---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCC
Q 020071          105 V---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNV  150 (331)
Q Consensus       105 ~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~  150 (331)
                      +         .+..+...+++|||++.|+...|..|+++|++.           +.++++|++|+.
T Consensus        78 ~~~~~~~~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~  143 (168)
T PF00158_consen   78 FTGARSDKKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSK  143 (168)
T ss_dssp             STTTSSEBEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS
T ss_pred             ccccccccCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecCc
Confidence            0         011346889999999999999999999999952           247889988875

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 ....

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

Probab=99.32  E-value=9.3e-11  Score=105.99  Aligned_cols=151  Identities=19%  Similarity=0.232  Sum_probs=101.6

Q ss_pred             CCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC--CCceEEeecCC----------CC--C
Q 020071           24 VCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY--REAVMELNASD----------DR--G   89 (331)
Q Consensus        24 ~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~--~~~~~~~~~~~----------~~--~   89 (331)
                      ++++++.+.....+...+..++  +++|+||||+|||++|+.++..+.+...  ....+.+...-          ..  +
T Consensus       174 l~d~~i~e~~le~l~~~L~~~~--~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vg  251 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTIKK--NIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVG  251 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhcCC--CEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCCCCC
Confidence            6778888999998888888765  7999999999999999999998854321  11223332110          00  1


Q ss_pred             h----HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHH-HHHHHHHHHH----------------------hcCCc
Q 020071           90 I----DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA-QQALRRTMEI----------------------YSNST  142 (331)
Q Consensus        90 ~----~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~-~~~Ll~~le~----------------------~~~~~  142 (331)
                      .    ..+.+....+...     ..++.++||||+++.+.+. ...++.++|.                      .|.++
T Consensus       252 y~~~~G~f~~~~~~A~~~-----p~~~~vliIDEINRani~kiFGel~~lLE~~~rg~~~~v~l~y~e~d~e~f~iP~Nl  326 (459)
T PRK11331        252 FRRKDGIFYNFCQQAKEQ-----PEKKYVFIIDEINRANLSKVFGEVMMLMEHDKRGENWSVPLTYSENDEERFYVPENV  326 (459)
T ss_pred             eEecCchHHHHHHHHHhc-----ccCCcEEEEehhhccCHHHhhhhhhhhccccccccccceeeeccccccccccCCCCe
Confidence            0    0122222222222     2357899999999998553 5566665651                      34677


Q ss_pred             EEEEeeCCCC----CCChhhhcccceeeecC-CCHHHHHHHHHH
Q 020071          143 RFALACNVSS----KIIEPIQSRCAIVRFSR-LSDEEILSRLMV  181 (331)
Q Consensus       143 ~~I~~~~~~~----~l~~~l~sr~~~i~~~~-~~~~~~~~~l~~  181 (331)
                      .+|.|+|...    .+..++++|+..+++.| ++...+.+++..
T Consensus       327 ~IIgTMNt~Drs~~~lD~AlrRRF~fi~i~p~~~~~~~~~~l~~  370 (459)
T PRK11331        327 YIIGLMNTADRSLAVVDYALRRRFSFIDIEPGFDTPQFRNFLLN  370 (459)
T ss_pred             EEEEecCccccchhhccHHHHhhhheEEecCCCChHHHHHHHHh
Confidence            8888888764    57899999999999988 455667777654

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.30  E-value=1.7e-11  Score=109.51  Aligned_cols=106  Identities=23%  Similarity=0.311  Sum_probs=76.1

Q ss_pred             CceEEEEeCCCCCCH------------HHHHHHHHHHHHhc----------CCcEEEEee----CCCCCCChhhhcccce
Q 020071          111 KHKVVVLDEADSMTA------------GAQQALRRTMEIYS----------NSTRFALAC----NVSSKIIEPIQSRCAI  164 (331)
Q Consensus       111 ~~~vviide~d~l~~------------~~~~~Ll~~le~~~----------~~~~~I~~~----~~~~~l~~~l~sr~~~  164 (331)
                      ...+|+|||+|++..            ..|+.||+++|...          .+..||++.    ..++.+.|.+.-|+.+
T Consensus       247 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~GR~Pi  326 (441)
T TIGR00390       247 QSGIIFIDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQGRFPI  326 (441)
T ss_pred             cCCEEEEEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccce
Confidence            578999999999853            36899999999522          233444442    2356789999999866


Q ss_pred             -eeecCCCHHHHHHHHHH----H-------HHhcCC--CCCHHHHHHHHHhc--------CCCHHHHHHHHHHH
Q 020071          165 -VRFSRLSDEEILSRLMV----V-------VQEEKV--PYVPEGLEAIIFTA--------DGDMRQALNNLQAT  216 (331)
Q Consensus       165 -i~~~~~~~~~~~~~l~~----~-------~~~~~~--~i~~~~~~~l~~~~--------~g~~r~~~~~l~~~  216 (331)
                       +.+.+++.+++..+|..    .       ++.+|+  .+++++++.|++.+        +--.|.+...++..
T Consensus       327 ~v~L~~L~~edL~rILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtilE~~  400 (441)
T TIGR00390       327 RVELQALTTDDFERILTEPKNSLIKQYKALMKTEGVNIEFSDEAIKRIAELAYNVNEKTENIGARRLHTVLERL  400 (441)
T ss_pred             EEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEeHHHHHHHHHHHHHhcccccccchhhHHHHHHHH
Confidence             59999999999998822    1       234454  56899999999765        33566777777655

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.

>PRK15115 response regulator GlrR; Provisional

Probab=99.30  E-value=2.3e-10  Score=106.72  Aligned_cols=201  Identities=18%  Similarity=0.212  Sum_probs=129.5

Q ss_pred             ccccCHHHHHHHHHHHHc--CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc
Q 020071           26 DIVGNLDAVARLGIIARD--GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK  103 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  103 (331)
                      .++|....+..+...+..  ..-++++++|++|+||+++|+.+.+....  ...+++.++|... ..+.+...+-.....
T Consensus       135 ~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s~r--~~~~f~~i~c~~~-~~~~~~~~lfg~~~~  211 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPR--ASKPFIAINCGAL-PEQLLESELFGHARG  211 (444)
T ss_pred             cccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhcCC--CCCCeEEEeCCCC-CHHHHHHHhcCCCcC
Confidence            467766665554444332  12234899999999999999999987532  2467899998865 222222222111111


Q ss_pred             cc---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CCCCh
Q 020071          104 KV---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SKIIE  156 (331)
Q Consensus       104 ~~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~l~~  156 (331)
                      .+         .+.....++++|||++.|+...|..|++++++..           .++++|++++..       ..+.+
T Consensus       212 ~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~l~~~~~~~~f~~  291 (444)
T PRK15115        212 AFTGAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAMARGEFRE  291 (444)
T ss_pred             CCCCCccCCCCcEEECCCCEEEEEccccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCCHHHHHHcCCccH
Confidence            10         0112356799999999999999999999998632           256888887642       12333


Q ss_pred             hhhccc--ceeeecCCCH--HHHHHH----HHHHHHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hCCCc
Q 020071          157 PIQSRC--AIVRFSRLSD--EEILSR----LMVVVQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATY--SGFRF  222 (331)
Q Consensus       157 ~l~sr~--~~i~~~~~~~--~~~~~~----l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~~~~  222 (331)
                      .+-.|.  ..+.++|+.+  +++..+    +.+.+...+   ..+++++++.|..+. .||+|++.+.++.++  .....
T Consensus       292 ~l~~~l~~~~i~lPpLr~R~eDi~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~WpgNvreL~~~i~~~~~~~~~~~  371 (444)
T PRK15115        292 DLYYRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVALTSSPV  371 (444)
T ss_pred             HHHHhhceeeecCCChHhccccHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCCc
Confidence            444443  3456666665  344433    333333333   248999999999998 999999999998765  34456


Q ss_pred             cchhhhh
Q 020071          223 VNQENVF  229 (331)
Q Consensus       223 i~~~~v~  229 (331)
                      |+.+++.
T Consensus       372 i~~~~l~  378 (444)
T PRK15115        372 ISDALVE  378 (444)
T ss_pred             cChhhhh
Confidence            7776664

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

Probab=99.29  E-value=8.6e-11  Score=105.07  Aligned_cols=106  Identities=23%  Similarity=0.341  Sum_probs=76.1

Q ss_pred             CceEEEEeCCCCCCH------------HHHHHHHHHHHHhc----------CCcEEEEee----CCCCCCChhhhcccce
Q 020071          111 KHKVVVLDEADSMTA------------GAQQALRRTMEIYS----------NSTRFALAC----NVSSKIIEPIQSRCAI  164 (331)
Q Consensus       111 ~~~vviide~d~l~~------------~~~~~Ll~~le~~~----------~~~~~I~~~----~~~~~l~~~l~sr~~~  164 (331)
                      ..++|+|||+|++..            ..|..||+++|...          .+..||++.    ..++.+.|.+.-|+.+
T Consensus       249 ~~GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~GR~Pi  328 (443)
T PRK05201        249 QNGIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQGRFPI  328 (443)
T ss_pred             cCCEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccce
Confidence            578999999999842            36899999999522          233344432    2356789999999876


Q ss_pred             -eeecCCCHHHHHHHHHH----H-------HHhcCC--CCCHHHHHHHHHhc--------CCCHHHHHHHHHHH
Q 020071          165 -VRFSRLSDEEILSRLMV----V-------VQEEKV--PYVPEGLEAIIFTA--------DGDMRQALNNLQAT  216 (331)
Q Consensus       165 -i~~~~~~~~~~~~~l~~----~-------~~~~~~--~i~~~~~~~l~~~~--------~g~~r~~~~~l~~~  216 (331)
                       +.+.+++.+++.++|..    .       ++.+|+  .+++++++.||+.+        +--.|.+...++.+
T Consensus       329 ~v~L~~L~~~dL~~ILteP~nsLikQy~~Lf~~egv~L~Ftd~Al~~IA~~A~~~N~~~~~iGAR~LrtI~E~~  402 (443)
T PRK05201        329 RVELDALTEEDFVRILTEPKASLIKQYQALLATEGVTLEFTDDAIRRIAEIAYQVNEKTENIGARRLHTVMEKL  402 (443)
T ss_pred             EEECCCCCHHHHHHHhcCChhHHHHHHHHHHhhcCcEEEEcHHHHHHHHHHHHHhcccccccchhhHHHHHHHH
Confidence             59999999999988833    2       233454  56899999999765        33466777777665

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

Probab=99.29  E-value=3.5e-11  Score=99.61  Aligned_cols=177  Identities=19%  Similarity=0.257  Sum_probs=119.5

Q ss_pred             CCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC--
Q 020071           23 KVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD--   87 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--   87 (331)
                      +..|+-|-.+.++.++..++-           | .+|. +|+|||||+|||.+|+++++..     +..|+.+-+++.  
T Consensus       175 ty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt-----dacfirvigselvq  249 (435)
T KOG0729|consen  175 TYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT-----DACFIRVIGSELVQ  249 (435)
T ss_pred             ccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc-----CceEEeehhHHHHH
Confidence            677888889999988877653           3 2233 9999999999999999999987     677887765543  


Q ss_pred             ----CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHH-----HhcCCcEEEEe
Q 020071           88 ----RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTME-----IYSNSTRFALA  147 (331)
Q Consensus        88 ----~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le-----~~~~~~~~I~~  147 (331)
                          .+...++++++.+.       .....++|+||+|.+.           .+.|..+++++.     .|..+..++++
T Consensus       250 kyvgegarmvrelf~mar-------tkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvlma  322 (435)
T KOG0729|consen  250 KYVGEGARMVRELFEMAR-------TKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMA  322 (435)
T ss_pred             HHhhhhHHHHHHHHHHhc-------ccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEEee
Confidence                12223344433222       2345799999998773           345666666665     46678899999


Q ss_pred             eCCCCCCChhhhccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcCC----CHHHHHHHH
Q 020071          148 CNVSSKIIEPIQSRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEG-LEAIIFTADG----DMRQALNNL  213 (331)
Q Consensus       148 ~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~-~~~l~~~~~g----~~r~~~~~l  213 (331)
                      +|.+.-+.|++.+-.   ..++|.-|+-+-...+++-.++.-  .++.+. .+.|++++..    ++|.+....
T Consensus       323 tnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksm--sverdir~ellarlcpnstgaeirsvctea  394 (435)
T KOG0729|consen  323 TNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSM--SVERDIRFELLARLCPNSTGAEIRSVCTEA  394 (435)
T ss_pred             cCCCCCcCHhhcCCcccccceeccCCcccccceeEEEecccc--ccccchhHHHHHhhCCCCcchHHHHHHHHh
Confidence            999999999997643   347888887776666665444322  334443 4556666543    555554443

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

Probab=99.27  E-value=2.2e-12  Score=100.64  Aligned_cols=110  Identities=26%  Similarity=0.343  Sum_probs=74.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHH------HHHhcccCCCCCCceEEEEeCCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIK------MFAQKKVTLPPGKHKVVVLDEAD  121 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~------~~~~~~~~~~~~~~~vviide~d  121 (331)
                      +|+|+||+|+|||++++.+++.+     +.++..+++......+++.....      .+...++.....+..+++|||++
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~-----~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin   75 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALL-----GRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEIN   75 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH-----TCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCG
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh-----hcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcc
Confidence            48999999999999999999999     67777777766533322111100      00111111111257899999999


Q ss_pred             CCCHHHHHHHHHHHHHh-------------cC------CcEEEEeeCCCC----CCChhhhccc
Q 020071          122 SMTAGAQQALRRTMEIY-------------SN------STRFALACNVSS----KIIEPIQSRC  162 (331)
Q Consensus       122 ~l~~~~~~~Ll~~le~~-------------~~------~~~~I~~~~~~~----~l~~~l~sr~  162 (331)
                      +.+++.++.|+.++++.             +.      +.++|+++|...    .+.+++++||
T Consensus        76 ~a~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~Rf  139 (139)
T PF07728_consen   76 RAPPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLDRF  139 (139)
T ss_dssp             G--HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHTT-
T ss_pred             cCCHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHhhC
Confidence            99999999999999831             11      378999999876    8899999996

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.

>smart00350 MCM minichromosome maintenance proteins

Probab=99.27  E-value=6.7e-11  Score=111.37  Aligned_cols=155  Identities=22%  Similarity=0.264  Sum_probs=98.3

Q ss_pred             ccccCHHHHHHHHHHHHcCCCC------------eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCCh--H
Q 020071           26 DIVGNLDAVARLGIIARDGNMP------------NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGI--D   91 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~~~~------------~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~--~   91 (331)
                      .+.|++.++..+.-.+-+|..+            |+||+|+||+|||++|+.+++.....    .+......+..+.  .
T Consensus       204 ~i~G~~~~k~~l~l~l~gg~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~----~~~~~~~~~~~~l~~~  279 (509)
T smart00350      204 SIYGHEDIKKAILLLLFGGVHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRA----VYTTGKGSSAVGLTAA  279 (509)
T ss_pred             cccCcHHHHHHHHHHHhCCCccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcc----eEcCCCCCCcCCcccc
Confidence            5778888877776666555322            79999999999999999999976321    1111000110000  0


Q ss_pred             hHHHHH-HHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeCCCC-----
Q 020071           92 VVRNKI-KMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACNVSS-----  152 (331)
Q Consensus        92 ~i~~~i-~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~~~~-----  152 (331)
                      .+++.. ..+...+..+..++.++++|||++.+++..+.+|+..||+.             +..+.+|.++|...     
T Consensus       280 ~~~~~~~g~~~~~~G~l~~A~~Gil~iDEi~~l~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~viAa~NP~~g~y~~  359 (509)
T smart00350      280 VTRDPETREFTLEGGALVLADNGVCCIDEFDKMDDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVLAAANPIGGRYDP  359 (509)
T ss_pred             ceEccCcceEEecCccEEecCCCEEEEechhhCCHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEEEEeCCCCcccCC
Confidence            011100 00000011111356789999999999999999999999853             25678888888642     


Q ss_pred             --------CCChhhhcccce-e-eecCCCHHHHHHHHHHHHH
Q 020071          153 --------KIIEPIQSRCAI-V-RFSRLSDEEILSRLMVVVQ  184 (331)
Q Consensus       153 --------~l~~~l~sr~~~-i-~~~~~~~~~~~~~l~~~~~  184 (331)
                              .+++++.|||.. + ...+++.+.-.+++.++.+
T Consensus       360 ~~~~~~n~~l~~~lLsRFdLi~~~~d~~~~~~d~~i~~~i~~  401 (509)
T smart00350      360 KLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVVD  401 (509)
T ss_pred             CcChhhccCCChHHhCceeeEEEecCCCChHHHHHHHHHHHH
Confidence                    588999999943 3 4566777666666665543

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.26  E-value=3.9e-10  Score=105.83  Aligned_cols=203  Identities=19%  Similarity=0.154  Sum_probs=137.0

Q ss_pred             CCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHH
Q 020071           24 VCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFA  101 (331)
Q Consensus        24 ~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~  101 (331)
                      ...++|.......+.+.+...  ....+++.|++|+||+++|+.+.......  ..+++.++|... ..+.+...+-...
T Consensus       133 ~~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~~~~--~~~~~~~~c~~~-~~~~~~~~lfg~~  209 (463)
T TIGR01818       133 SAELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSPRA--NGPFIALNMAAI-PKDLIESELFGHE  209 (463)
T ss_pred             ccceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhCCCC--CCCeEEEeCCCC-CHHHHHHHhcCCC
Confidence            346888777777666555432  22238999999999999999999865332  567889998775 2233332221000


Q ss_pred             hccc---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CCC
Q 020071          102 QKKV---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SKI  154 (331)
Q Consensus       102 ~~~~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~l  154 (331)
                      ...+         .+....+.+++|||++.++.+.|..|++++++..           .++++|++++..       ..+
T Consensus       210 ~~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~f  289 (463)
T TIGR01818       210 KGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGKF  289 (463)
T ss_pred             CCCCCCcccCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHHcCCc
Confidence            0000         0112346789999999999999999999998532           256888887653       244


Q ss_pred             Chhhhccc--ceeeecCCC--HHHHHHHHHHH----HHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hCC
Q 020071          155 IEPIQSRC--AIVRFSRLS--DEEILSRLMVV----VQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATY--SGF  220 (331)
Q Consensus       155 ~~~l~sr~--~~i~~~~~~--~~~~~~~l~~~----~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~~  220 (331)
                      .+.+..|.  ..+.++|+.  .+++..++...    +...+   ..+++++++.|..+. .||+|++.+.++.++  ...
T Consensus       290 ~~~L~~rl~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~~~~~~~~~~~  369 (463)
T TIGR01818       290 REDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLENLCRWLTVMASG  369 (463)
T ss_pred             HHHHHHHhCcceecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCC
Confidence            45666765  467888888  46666665544    33333   468999999999886 799999999998875  334


Q ss_pred             Cccchhhhh
Q 020071          221 RFVNQENVF  229 (331)
Q Consensus       221 ~~i~~~~v~  229 (331)
                      ..|+.+++.
T Consensus       370 ~~i~~~~l~  378 (463)
T TIGR01818       370 DEVLVSDLP  378 (463)
T ss_pred             CcccHHhch
Confidence            467776664

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.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.26  E-value=4.8e-10  Score=105.08  Aligned_cols=204  Identities=16%  Similarity=0.164  Sum_probs=132.7

Q ss_pred             CCCccccCHHHHHHHHHHHHcCC--CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           23 KVCDIVGNLDAVARLGIIARDGN--MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      .+..++|....+..+.+.+....  ..+++++|++|+||+++|+.++.....  ...+++.++|.... .+.+...+-..
T Consensus       141 ~~~~ii~~S~~~~~~~~~~~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~--~~~~~~~i~c~~~~-~~~~~~~lfg~  217 (457)
T PRK11361        141 QWGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSRR--AKGPFIKVNCAALP-ESLLESELFGH  217 (457)
T ss_pred             cccceecccHHHhHHHHHHHHHcCCCcEEEEEcCCCccHHHHHHHHHHhCCC--CCCCeEEEECCCCC-HHHHHHHhcCC
Confidence            34568887777776666654432  224899999999999999999886532  35678989987652 22222221100


Q ss_pred             Hhccc---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CC
Q 020071          101 AQKKV---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SK  153 (331)
Q Consensus       101 ~~~~~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~  153 (331)
                      ....+         .+.....++++|||++.++...|..|++++++..           .++++|++++..       ..
T Consensus       218 ~~~~~~~~~~~~~g~~~~a~~gtl~ld~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~l~~~~~~g~  297 (457)
T PRK11361        218 EKGAFTGAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGT  297 (457)
T ss_pred             CCCCCCCCCCCCCCceEECCCCEEEEechhhCCHHHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCC
Confidence            00000         1113456899999999999999999999998531           357888888653       23


Q ss_pred             CChhhhccc--ceeeecCCCH--HHHHHH----HHHHHHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hC
Q 020071          154 IIEPIQSRC--AIVRFSRLSD--EEILSR----LMVVVQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATY--SG  219 (331)
Q Consensus       154 l~~~l~sr~--~~i~~~~~~~--~~~~~~----l~~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~  219 (331)
                      +.+.+-.|+  ..+.++|+.+  +++..+    +.+...+.+   ..+++++++.|..+. .||+|++.+.++.++  ..
T Consensus       298 ~~~~l~~~l~~~~i~~ppLreR~~di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~~~~~~~~~~  377 (457)
T PRK11361        298 FREDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVVMNS  377 (457)
T ss_pred             chHHHHHHhccceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHcCCCCCcHHHHHHHHHHHHHhCC
Confidence            444455553  3456667764  344333    333333323   458999999999876 899999999998775  33


Q ss_pred             CCccchhhhh
Q 020071          220 FRFVNQENVF  229 (331)
Q Consensus       220 ~~~i~~~~v~  229 (331)
                      ...|+.+++-
T Consensus       378 ~~~i~~~~l~  387 (457)
T PRK11361        378 GPIIFSEDLP  387 (457)
T ss_pred             CCcccHHHCh
Confidence            4467766654

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.26  E-value=4.1e-10  Score=107.33  Aligned_cols=212  Identities=19%  Similarity=0.244  Sum_probs=133.9

Q ss_pred             hcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC---------
Q 020071           18 KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR---------   88 (331)
Q Consensus        18 ~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---------   88 (331)
                      ...|..|++++||++++..|...+..+.  +++|+||||+|||++++.+++.+.+.....-++..|+.+..         
T Consensus        24 ~~~~~~~~~vigq~~a~~~L~~~~~~~~--~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~np~~~~~~~~~~v~~  101 (637)
T PRK13765         24 EVPERLIDQVIGQEHAVEVIKKAAKQRR--HVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPNPEDPNNPKIRTVPA  101 (637)
T ss_pred             ccCcccHHHcCChHHHHHHHHHHHHhCC--eEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeCCCcchHHHHHHHHH
Confidence            3458899999999999999999998875  79999999999999999999998764322112222211110         


Q ss_pred             --ChH---------------------------------------------------------------------------
Q 020071           89 --GID---------------------------------------------------------------------------   91 (331)
Q Consensus        89 --~~~---------------------------------------------------------------------------   91 (331)
                        +..                                                                           
T Consensus       102 ~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nllv~ns~~~~  181 (637)
T PRK13765        102 GKGKQIVEAHKEEARKRNQMRNMLMMIIIAGIIGYAFIYAGQILWGIIAAGLIYMALRYFRPKEDAMVPKLLVNNADKKT  181 (637)
T ss_pred             hcCHHHHHHHHHHhhhhccccchhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhCCcCceEEEEEEEeCCCCCC
Confidence              000                                                                           


Q ss_pred             ---------hHHHHHHHHH----------hcccC------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh--------
Q 020071           92 ---------VVRNKIKMFA----------QKKVT------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIY--------  138 (331)
Q Consensus        92 ---------~i~~~i~~~~----------~~~~~------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~--------  138 (331)
                               ...+++....          ...+.      +..+++.+++|||++.|+...|..|++.|++.        
T Consensus       182 aPvi~~~~p~~~~LfG~i~~~~~~~Gg~~t~~~~~i~~G~L~kAnGGtL~LDei~~L~~~~q~~Llr~L~~~~i~i~g~~  261 (637)
T PRK13765        182 APFVDATGAHAGALLGDVRHDPFQSGGLETPAHDRVEAGAIHKAHKGVLFIDEINTLDLESQQSLLTAMQEKKFPITGQS  261 (637)
T ss_pred             CCEEEeCCCCHHHcCCccccccccccccccCccccCCCCceeECCCcEEEEeChHhCCHHHHHHHHHHHHhCCEEecccc
Confidence                     0000000000          00000      11245789999999999999999999999632        


Q ss_pred             -------------cCCcEEEEeeCCC--CCCChhhhcccce----eeecC---CCHHHHHHHHHHHHHh---c--CCCCC
Q 020071          139 -------------SNSTRFALACNVS--SKIIEPIQSRCAI----VRFSR---LSDEEILSRLMVVVQE---E--KVPYV  191 (331)
Q Consensus       139 -------------~~~~~~I~~~~~~--~~l~~~l~sr~~~----i~~~~---~~~~~~~~~l~~~~~~---~--~~~i~  191 (331)
                                   |.++++|++++..  ..+.+.+.+|+..    +.|..   -+++....+++..++.   .  -..++
T Consensus       262 e~~~~~~~~~~~ip~dvrvI~a~~~~ll~~~dpdL~~rfk~~~v~v~f~~~~~d~~e~~~~~~~~iaqe~~~~G~l~~f~  341 (637)
T PRK13765        262 ERSSGAMVRTEPVPCDFIMVAAGNLDALENMHPALRSRIKGYGYEVYMRDTMEDTPENRRKLVRFVAQEVKRDGKIPHFD  341 (637)
T ss_pred             cccccccCCCcceeeeeEEEEecCcCHHHhhhHHHHHHhccCeEEEEcccccCCCHHHHHHHHHHHHHHhhhccCCCCCC
Confidence                         1256788888764  4567889898752    44543   3345566666544432   2  23689


Q ss_pred             HHHHHHHHHhc---CCC-------HHHHHHHHHHH---h--hCCCccchhhhhhh
Q 020071          192 PEGLEAIIFTA---DGD-------MRQALNNLQAT---Y--SGFRFVNQENVFKV  231 (331)
Q Consensus       192 ~~~~~~l~~~~---~g~-------~r~~~~~l~~~---~--~~~~~i~~~~v~~~  231 (331)
                      ++++..|++.+   .|+       .|.+.++++.+   +  .+...++.++|.+.
T Consensus       342 ~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~~a  396 (637)
T PRK13765        342 RDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVLEA  396 (637)
T ss_pred             HHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhccceecHHHHHHH
Confidence            99988888653   232       56666666543   2  33445777776554

>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=99.25  E-value=9.8e-12  Score=100.94  Aligned_cols=125  Identities=28%  Similarity=0.313  Sum_probs=75.6

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee------c----------CC
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN------A----------SD   86 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~------~----------~~   86 (331)
                      .|.+++||+.++..+.-+..++.  |++++||||+|||++|+.+...+..-... ...++.      .          ..
T Consensus         1 Df~dI~GQe~aKrAL~iAAaG~h--~lLl~GppGtGKTmlA~~l~~lLP~l~~~-e~le~~~i~s~~~~~~~~~~~~~~P   77 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAAAGGH--HLLLIGPPGTGKTMLARRLPSLLPPLTEE-EALEVSKIYSVAGLGPDEGLIRQRP   77 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHHHCC----EEEES-CCCTHHHHHHHHHHCS--CCEE-CCESS--S-TT---S---EEEE---
T ss_pred             ChhhhcCcHHHHHHHHHHHcCCC--CeEEECCCCCCHHHHHHHHHHhCCCCchH-HHhhhccccccccCCCCCceecCCC
Confidence            48899999999999998888764  69999999999999999999876432110 001100      0          00


Q ss_pred             CC---ChHhHHHHHHHHHh-cccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH-------------hcCCcEEEEeeC
Q 020071           87 DR---GIDVVRNKIKMFAQ-KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI-------------YSNSTRFALACN  149 (331)
Q Consensus        87 ~~---~~~~i~~~i~~~~~-~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~-------------~~~~~~~I~~~~  149 (331)
                      ..   .......++..-.. .+-....+.+.|+++||+..+.+...+.|+..+|+             +|.++.+|.++|
T Consensus        78 fr~phhs~s~~~liGgg~~~~PGeislAh~GVLflDE~~ef~~~vld~Lr~ple~g~v~i~R~~~~~~~Pa~f~lv~a~N  157 (206)
T PF01078_consen   78 FRAPHHSASEAALIGGGRPPRPGEISLAHRGVLFLDELNEFDRSVLDALRQPLEDGEVTISRAGGSVTYPARFLLVAAMN  157 (206)
T ss_dssp             EEEE-TT--HHHHHEEGGGEEE-CGGGGTTSEEEECETTTS-HHHHHHHHHHHHHSBEEEEETTEEEEEB--EEEEEEE-
T ss_pred             cccCCCCcCHHHHhCCCcCCCcCHHHHhcCCEEEechhhhcCHHHHHHHHHHHHCCeEEEEECCceEEEecccEEEEEec
Confidence            00   00011111111100 11112245789999999999999999999999985             456777888876


Q ss_pred             C
Q 020071          150 V  150 (331)
Q Consensus       150 ~  150 (331)
                      .
T Consensus       158 P  158 (206)
T PF01078_consen  158 P  158 (206)
T ss_dssp             S
T ss_pred             c
Confidence            5

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.

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

Probab=99.24  E-value=2.3e-10  Score=109.42  Aligned_cols=200  Identities=19%  Similarity=0.201  Sum_probs=146.0

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC-----CceEEeecCCC
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYR-----EAVMELNASDD   87 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~-----~~~~~~~~~~~   87 (331)
                      ..+++.-|-..++.++|+++.+.++.+.+.....++-+|.|+||+|||.++..+|......+..     ..++.++....
T Consensus       158 ~dlt~~Ar~gklDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~L  237 (786)
T COG0542         158 RDLTELAREGKLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSL  237 (786)
T ss_pred             hhhHHHHhcCCCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHH
Confidence            3566677788899999999999999999999887778999999999999999999998654322     23344432211


Q ss_pred             ----CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC---------HHHHHHHHHHHHHhcCCcEEEEeeCCC---
Q 020071           88 ----RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT---------AGAQQALRRTMEIYSNSTRFALACNVS---  151 (331)
Q Consensus        88 ----~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~---------~~~~~~Ll~~le~~~~~~~~I~~~~~~---  151 (331)
                          ....++.+.++.......   ..+.-++||||+|.+-         -++.|.|...|..  ...+.|.+|+..   
T Consensus       238 vAGakyRGeFEeRlk~vl~ev~---~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLAR--GeL~~IGATT~~EYR  312 (786)
T COG0542         238 VAGAKYRGEFEERLKAVLKEVE---KSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALAR--GELRCIGATTLDEYR  312 (786)
T ss_pred             hccccccCcHHHHHHHHHHHHh---cCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhc--CCeEEEEeccHHHHH
Confidence                011233344333333221   2337899999999772         3467788888875  456777776542   


Q ss_pred             --CCCChhhhcccceeeecCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcC------CCHHHHHHHHHHHh
Q 020071          152 --SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE----EKVPYVPEGLEAIIFTAD------GDMRQALNNLQATY  217 (331)
Q Consensus       152 --~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~------g~~r~~~~~l~~~~  217 (331)
                        -.-.+++.+|++.+.+..|+.++...+|+....+    +++.++++++...+.++.      .-|.+++..++.++
T Consensus       313 k~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk~~yE~hH~V~i~D~Al~aAv~LS~RYI~dR~LPDKAIDLiDeA~  390 (786)
T COG0542         313 KYIEKDAALERRFQKVLVDEPSVEDTIAILRGLKERYEAHHGVRITDEALVAAVTLSDRYIPDRFLPDKAIDLLDEAG  390 (786)
T ss_pred             HHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHHHHHHHccCceecHHHHHHHHHHHHhhcccCCCCchHHHHHHHHH
Confidence              2346899999999999999999999998876553    578899999988887763      35788999998764

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

Probab=99.23  E-value=4.5e-10  Score=103.93  Aligned_cols=171  Identities=20%  Similarity=0.245  Sum_probs=126.3

Q ss_pred             CccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC----
Q 020071           25 CDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD----   87 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~----   87 (331)
                      .++.|-...+..++..+.-           | +.|. +|+|||||+|||.++++++++.     +..++.++++..    
T Consensus       184 ~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~-----~a~~~~i~~peli~k~  258 (693)
T KOG0730|consen  184 DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEY-----GAFLFLINGPELISKF  258 (693)
T ss_pred             cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHh-----CceeEecccHHHHHhc
Confidence            5666767777666555431           2 2333 8999999999999999999998     566777776533    


Q ss_pred             --CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH----------HHHHHHHHHHHHhc--CCcEEEEeeCCCCC
Q 020071           88 --RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA----------GAQQALRRTMEIYS--NSTRFALACNVSSK  153 (331)
Q Consensus        88 --~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~----------~~~~~Ll~~le~~~--~~~~~I~~~~~~~~  153 (331)
                        .+...++..+..+....      .+.+++|||+|.+.+          .....|+.+++...  .++++|.++|.+..
T Consensus       259 ~gEte~~LR~~f~~a~k~~------~psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~vivl~atnrp~s  332 (693)
T KOG0730|consen  259 PGETESNLRKAFAEALKFQ------VPSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKVIVLAATNRPDS  332 (693)
T ss_pred             ccchHHHHHHHHHHHhccC------CCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcEEEEEecCCccc
Confidence              12234455555444322      278999999998863          34567888888665  67788888999999


Q ss_pred             CChhhhc-cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHH
Q 020071          154 IIEPIQS-RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMR  207 (331)
Q Consensus       154 l~~~l~s-r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r  207 (331)
                      +.+.+++ |+ ..+.+.-|+..+..++++...++.+.. ++..+..++..++|-.+
T Consensus       333 ld~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~~~~-~~~~l~~iA~~thGyvG  387 (693)
T KOG0730|consen  333 LDPALRRGRFDREVEIGIPGSDGRLDILRVLTKKMNLL-SDVDLEDIAVSTHGYVG  387 (693)
T ss_pred             cChhhhcCCCcceeeecCCCchhHHHHHHHHHHhcCCc-chhhHHHHHHHccchhH
Confidence            9999996 66 457888899999999999998888765 67778889988877543

>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=99.20  E-value=3.3e-11  Score=89.80  Aligned_cols=111  Identities=22%  Similarity=0.176  Sum_probs=60.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHH-HHHH--HhcccCCCCCCceEEEEeCCCCCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNK-IKMF--AQKKVTLPPGKHKVVVLDEADSMT  124 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~-i~~~--~~~~~~~~~~~~~vviide~d~l~  124 (331)
                      |+||+|+||+|||++|+.+++.+     +..|..+.+.......++... +-..  ....+....--..++++||+++.+
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~-----~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif~~ill~DEiNrap   75 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSL-----GLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIFTNILLADEINRAP   75 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHT-----T--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT-SSEEEEETGGGS-
T ss_pred             CEeeECCCccHHHHHHHHHHHHc-----CCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhhhceeeecccccCC
Confidence            78999999999999999999998     556666655432221111110 0000  000000001124699999999999


Q ss_pred             HHHHHHHHHHHHHh-----------cCCcEEEEeeCCCC-----CCChhhhcccc
Q 020071          125 AGAQQALRRTMEIY-----------SNSTRFALACNVSS-----KIIEPIQSRCA  163 (331)
Q Consensus       125 ~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~~-----~l~~~l~sr~~  163 (331)
                      +..|.+|++.|++.           |....+|.+.|..+     .++.++.+|+.
T Consensus        76 pktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~DRF~  130 (131)
T PF07726_consen   76 PKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLDRFM  130 (131)
T ss_dssp             HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHTTSS
T ss_pred             HHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhcccc
Confidence            99999999999963           23345566666543     68888888874

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.

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

Probab=99.19  E-value=3.1e-11  Score=96.89  Aligned_cols=101  Identities=29%  Similarity=0.401  Sum_probs=68.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc-CCCCCCceEEeecCCCCChHhHHHHHHHHHhccc-CCCCCCceEEEEeCCCCCCH
Q 020071           48 NLILAGPPGTGKTTSILALAHELL-GPNYREAVMELNASDDRGIDVVRNKIKMFAQKKV-TLPPGKHKVVVLDEADSMTA  125 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~-~~~~~~~~vviide~d~l~~  125 (331)
                      +++|.||+|+|||.+|+.+++.+. +.  ..+++.++++.....+.....+......+. .....+..||++||+|+.++
T Consensus         5 ~~ll~GpsGvGKT~la~~la~~l~~~~--~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa~~   82 (171)
T PF07724_consen    5 NFLLAGPSGVGKTELAKALAELLFVGS--ERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKAHP   82 (171)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHT-SS--CCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGCSH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccCC--ccchHHHhhhcccccchHHhhhhhhhhcccceeeccchhhhhhHHHhhccc
Confidence            489999999999999999999995 33  457888887765442211111111111110 00012345999999999999


Q ss_pred             -----------HHHHHHHHHHHHh-----------cCCcEEEEeeCC
Q 020071          126 -----------GAQQALRRTMEIY-----------SNSTRFALACNV  150 (331)
Q Consensus       126 -----------~~~~~Ll~~le~~-----------~~~~~~I~~~~~  150 (331)
                                 ..++.|++++|+.           -.++.||+++|-
T Consensus        83 ~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~  129 (171)
T PF07724_consen   83 SNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNF  129 (171)
T ss_dssp             TTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESS
T ss_pred             cccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccc
Confidence                       9999999999952           146678888764

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 ....

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.19  E-value=1.2e-09  Score=104.34  Aligned_cols=189  Identities=19%  Similarity=0.158  Sum_probs=119.0

Q ss_pred             HHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC----CChHhHHHHHHHH--HhcccCCCCCCceE
Q 020071           41 ARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD----RGIDVVRNKIKMF--AQKKVTLPPGKHKV  114 (331)
Q Consensus        41 l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~----~~~~~i~~~i~~~--~~~~~~~~~~~~~v  114 (331)
                      .-+..+.|+||.|++|+|||++|+.+++.+..   ..+|+.+.....    .+.-.+...+..-  ...+-.+...++.+
T Consensus        11 av~p~~g~vLl~G~~GtgKs~lar~l~~~~~~---~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A~~Gv   87 (589)
T TIGR02031        11 AVDPSLGGVAIRARAGTGKTALARALAEILPP---IMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDEAPRGV   87 (589)
T ss_pred             ccCCCcceEEEEcCCCcHHHHHHHHHHHhCCc---CCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeeeCCCCc
Confidence            33445778999999999999999999998743   224666653211    1111111111100  00010111356789


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHhc-------------CCcEEEEeeCCCC---CCChhhhcccce-eee-cCCCHHHHH
Q 020071          115 VVLDEADSMTAGAQQALRRTMEIYS-------------NSTRFALACNVSS---KIIEPIQSRCAI-VRF-SRLSDEEIL  176 (331)
Q Consensus       115 viide~d~l~~~~~~~Ll~~le~~~-------------~~~~~I~~~~~~~---~l~~~l~sr~~~-i~~-~~~~~~~~~  176 (331)
                      ++|||++.+++..++.|+..|++..             ..+++|.++|...   .+.+.+..|+.. +.+ .+++.++..
T Consensus        88 L~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~LldRf~l~v~~~~~~~~~er~  167 (589)
T TIGR02031        88 LYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLDRLALHVSLEDVASQDLRV  167 (589)
T ss_pred             EeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHHhccCeeecCCCCCHHHHH
Confidence            9999999999999999999998532             4567787777654   788999999765 233 333444434


Q ss_pred             HHHHHHH---------------------H--hcCCCCCHHHHHHHHHhc---C-CCHHHHHHHHHHH-----hhCCCccc
Q 020071          177 SRLMVVV---------------------Q--EEKVPYVPEGLEAIIFTA---D-GDMRQALNNLQAT-----YSGFRFVN  224 (331)
Q Consensus       177 ~~l~~~~---------------------~--~~~~~i~~~~~~~l~~~~---~-g~~r~~~~~l~~~-----~~~~~~i~  224 (331)
                      ++++...                     +  ...+.++++.+++|+..+   + ..+|..+..++.+     ..+...++
T Consensus       168 eil~~~~~~~~~~~~~~~~~~~~~i~~ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~  247 (589)
T TIGR02031       168 EIVRRERCNEVFRMNDELELLRGQIEAARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVT  247 (589)
T ss_pred             HHHHHHHHhhhhhcchhhHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCC
Confidence            4443321                     1  235678898888888654   2 2367766666433     26777899


Q ss_pred             hhhhhhhc
Q 020071          225 QENVFKVC  232 (331)
Q Consensus       225 ~~~v~~~~  232 (331)
                      .+|+..++
T Consensus       248 ~~Dv~~a~  255 (589)
T TIGR02031       248 EEDLKLAV  255 (589)
T ss_pred             HHHHHHHH
Confidence            99987654

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.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.15  E-value=2.3e-09  Score=94.62  Aligned_cols=187  Identities=15%  Similarity=0.082  Sum_probs=117.5

Q ss_pred             chhhhcCCCCCC-ccccCHHHHHHHHHHHHcC----CCC-e-EEEeCCCCccHHHHHHHHHHHhcCC--CCCCceEEe--
Q 020071           14 PWVEKYRPTKVC-DIVGNLDAVARLGIIARDG----NMP-N-LILAGPPGTGKTTSILALAHELLGP--NYREAVMEL--   82 (331)
Q Consensus        14 ~~~~~~~p~~~~-~~ig~~~~~~~l~~~l~~~----~~~-~-~ll~G~~G~GKt~la~~l~~~l~~~--~~~~~~~~~--   82 (331)
                      ++...++...|+ +++|+++.+..+..+++..    ... . ++|+||||+|||++|+++++.+..-  ....+++.+  
T Consensus        39 ~~~~~~~y~~F~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       39 NNRGIKRYRFFDHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             CCcceeeccccchhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            444567777888 8999999999887777652    112 2 6999999999999999999988430  000000000  


Q ss_pred             ---------------------------------------------------------------------------ecCCC
Q 020071           83 ---------------------------------------------------------------------------NASDD   87 (331)
Q Consensus        83 ---------------------------------------------------------------------------~~~~~   87 (331)
                                                                                                 .+.|.
T Consensus       119 ~~~~sp~~e~Pl~l~p~~~r~~~~~~~~~~~~~~~~~l~p~c~~~l~~e~~gd~~~~~V~~~~~s~~~~~gi~~~~P~D~  198 (361)
T smart00763      119 NGEESPMHEDPLHLFPDELREDLEDEYGIPRRRLEGDLSPWCRKRLDEEYGGDIEKFEVVRVNFSELRRIGIGKFEPKDE  198 (361)
T ss_pred             cCCCCCCccCCcccCCHHHHHHHHHHhCCChhhcCCCCCHHHHHHHHHHhCCCcceEEEEEecCCeecceEEEEECCCCC
Confidence                                                                                       01111


Q ss_pred             CChHhHHHHHHHHHhc-----cc----------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CC
Q 020071           88 RGIDVVRNKIKMFAQK-----KV----------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NS  141 (331)
Q Consensus        88 ~~~~~i~~~i~~~~~~-----~~----------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~  141 (331)
                       +...+.+++.+....     ..          .++.+.++++-++|+.+...+.++.|+..+++..           .+
T Consensus       199 -~~qdi~~L~G~vd~~k~~~~~~~dp~a~~~~G~l~~aNrGi~~f~Ei~K~~~~~l~~LL~~~qE~~v~~~~~~~~~~~d  277 (361)
T smart00763      199 -NNQDISELTGKVDIRKLEIYSESDPRAFSYDGALNRANRGILEFVEMFKADIKFLHPLLTATQEGNIKGTGGFAMIPID  277 (361)
T ss_pred             -CcccHHHHhcccCHHHhcccCCCCCeEEeccCccccccCceEEEeehhcCCHHHHHHHhhhhhcceEecCCcccccccc
Confidence             111222222111000     00          1224567899999999999999999999998521           23


Q ss_pred             cEEEEeeCCC-------CCCChhhhcccceeeecCCCH-HHHHHHHHHHHHhc---CCCCCHHHHHHHHHh
Q 020071          142 TRFALACNVS-------SKIIEPIQSRCAIVRFSRLSD-EEILSRLMVVVQEE---KVPYVPEGLEAIIFT  201 (331)
Q Consensus       142 ~~~I~~~~~~-------~~l~~~l~sr~~~i~~~~~~~-~~~~~~l~~~~~~~---~~~i~~~~~~~l~~~  201 (331)
                      ..||+++|..       .+..+++++||..+.++.+.. .+-.++.++.+...   +..+.+.+++.++..
T Consensus       278 ~liia~sNe~e~~~~~~~k~~eaf~dR~~~i~vpY~l~~~~E~~Iy~k~~~~s~~~~~~~aP~~le~aa~~  348 (361)
T smart00763      278 GLIIAHSNESEWQRFKSNKKNEALLDRIIKVKVPYCLRVSEEAQIYEKLLRNSDLTEAHIAPHTLEMAALF  348 (361)
T ss_pred             eEEEEeCCHHHHhhhhccccchhhhhceEEEeCCCcCCHHHHHHHHHHHhccCcCcccccCchHHHHHHHH
Confidence            4466667664       367899999999988875554 45555556555433   456677766666543

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

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=99.14  E-value=1.6e-10  Score=89.86  Aligned_cols=125  Identities=17%  Similarity=0.201  Sum_probs=81.2

Q ss_pred             ccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhccc
Q 020071           28 VGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKV  105 (331)
Q Consensus        28 ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~  105 (331)
                      +|....++.+++.++.-  ...+|+|+|++|+||+++|+.++..-..  ...+++.+++....     .+.++.      
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~--~~~~~~~~~~~~~~-----~~~l~~------   67 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGR--ANGPFIVIDCASLP-----AELLEQ------   67 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTT--CCS-CCCCCHHCTC-----HHHHHH------
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCc--cCCCeEEechhhCc-----HHHHHH------
Confidence            46667777777776552  2224999999999999999999986532  23455555554431     222222      


Q ss_pred             CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-cCCcEEEEeeCCC-C------CCChhhhccc--ceeeecC
Q 020071          106 TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-SNSTRFALACNVS-S------KIIEPIQSRC--AIVRFSR  169 (331)
Q Consensus       106 ~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-~~~~~~I~~~~~~-~------~l~~~l~sr~--~~i~~~~  169 (331)
                          ....+++|+|+|.++.+.|..|..+++.. ..++++|+++... .      .+.+.+-.|+  ..+.++|
T Consensus        68 ----a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~l~~l~~~~~~~~~L~~~l~~~~i~lPp  137 (138)
T PF14532_consen   68 ----AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQDLEELVEEGRFSPDLYYRLSQLEIHLPP  137 (138)
T ss_dssp             ----CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-CCCHHHHSTHHHHHHHHCSTCEEEE--
T ss_pred             ----cCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCCHHHHhhccchhHHHHHHhCCCEEeCCC
Confidence                24679999999999999999999999864 5688999998653 2      3445555553  3455554

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.14  E-value=4.1e-09  Score=98.36  Aligned_cols=201  Identities=14%  Similarity=0.196  Sum_probs=129.9

Q ss_pred             ccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc
Q 020071           26 DIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK  103 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  103 (331)
                      .++|....+..+...+..-  ...+++++|++|+||+++|+.+......  ...+++.++|.... .+.+...+-.....
T Consensus       140 ~lig~s~~~~~~~~~i~~~~~~~~~vli~ge~g~gk~~~a~~ih~~s~~--~~~~~i~~~c~~~~-~~~~~~~lfg~~~~  216 (441)
T PRK10365        140 GMVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKELVARAIHASSAR--SEKPLVTLNCAALN-ESLLESELFGHEKG  216 (441)
T ss_pred             ceEecCHHHHHHHHHHhhccCCCCeEEEEecCCCCHHHHHHHHHHcCCC--CCCCeeeeeCCCCC-HHHHHHHhcCCCCC
Confidence            4666666666554444322  2223899999999999999999886532  25689999998652 23333332111111


Q ss_pred             cc---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CCCCh
Q 020071          104 KV---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SKIIE  156 (331)
Q Consensus       104 ~~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~l~~  156 (331)
                      .+         .+...++++++|||++.|+...|..|++++++..           .++++|++++..       ..+.+
T Consensus       217 ~~~~~~~~~~g~~~~a~~gtl~ldei~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~~~~~~~~~~~~  296 (441)
T PRK10365        217 AFTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQ  296 (441)
T ss_pred             CcCCCCcCCCCceeECCCCEEEEeccccCCHHHHHHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCchH
Confidence            00         0113457899999999999999999999998532           256788877653       23444


Q ss_pred             hhhccc--ceeeecCCCH--HHHHHHHH----HHHHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hCCCc
Q 020071          157 PIQSRC--AIVRFSRLSD--EEILSRLM----VVVQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATY--SGFRF  222 (331)
Q Consensus       157 ~l~sr~--~~i~~~~~~~--~~~~~~l~----~~~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~~~~  222 (331)
                      .+..|+  ..+.++|+.+  +++..++.    +.+.+.+   ..+++++++.|..+. .||+|++.+.++.++  .....
T Consensus       297 ~l~~~l~~~~i~~ppLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgN~reL~~~~~~~~~~~~~~~  376 (441)
T PRK10365        297 DLYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEY  376 (441)
T ss_pred             HHHHHhccceecCCChhhcchhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCCc
Confidence            444554  3456666664  24443333    3333333   358999999999988 899999999998865  34456


Q ss_pred             cchhhhh
Q 020071          223 VNQENVF  229 (331)
Q Consensus       223 i~~~~v~  229 (331)
                      |+.+++.
T Consensus       377 i~~~~l~  383 (441)
T PRK10365        377 ISERELP  383 (441)
T ss_pred             cchHhCc
Confidence            7766654

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=99.14  E-value=1.4e-09  Score=95.59  Aligned_cols=183  Identities=14%  Similarity=0.189  Sum_probs=103.4

Q ss_pred             CHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhc-CCCCCCceEEeecCCCCChH-hHHHHHHHHHhccc
Q 020071           30 NLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELL-GPNYREAVMELNASDDRGID-VVRNKIKMFAQKKV  105 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~-~i~~~i~~~~~~~~  105 (331)
                      ++..++++.+.+...  ....+.++|++|+|||++|..+++... ...++ .++.++........ ....++........
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~-~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFD-GVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCT-EEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccc-ccccccccccccccccccccccccccccc
Confidence            356778888888873  333379999999999999999998732 22221 22333322221111 22222222221100


Q ss_pred             CC----------------CCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecC
Q 020071          106 TL----------------PPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSR  169 (331)
Q Consensus       106 ~~----------------~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~  169 (331)
                      ..                ...++.++|+|+++...  ..+.+...+...+.++.+|+||.+. .+..........+++.+
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~--~~~~l~~~~~~~~~~~kilvTTR~~-~v~~~~~~~~~~~~l~~  156 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEE--DLEELREPLPSFSSGSKILVTTRDR-SVAGSLGGTDKVIELEP  156 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHH--HH-------HCHHSS-EEEEEESCG-GGGTTHHSCEEEEECSS
T ss_pred             ccccccccccccccchhhhccccceeeeeeecccc--ccccccccccccccccccccccccc-ccccccccccccccccc
Confidence            00                03458899999987653  3444555554445578888888653 33333433367899999


Q ss_pred             CCHHHHHHHHHHHHHhcC---CCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 020071          170 LSDEEILSRLMVVVQEEK---VPYVPEGLEAIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       170 ~~~~~~~~~l~~~~~~~~---~~i~~~~~~~l~~~~~g~~r~~~~~l~~~  216 (331)
                      ++.++..+++.+.+....   ..-.++.++.|++.++|.|-.+.-....+
T Consensus       157 L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l  206 (287)
T PF00931_consen  157 LSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYL  206 (287)
T ss_dssp             --HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999999876443   11224567899999999887665554443

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=99.13  E-value=1.1e-09  Score=106.50  Aligned_cols=147  Identities=16%  Similarity=0.147  Sum_probs=91.2

Q ss_pred             ccccCHHHHHHHHHHHHcCCC---------------------CeEEEeCCCCccHHHHHHHHHHHhcCCC--CCCceEEe
Q 020071           26 DIVGNLDAVARLGIIARDGNM---------------------PNLILAGPPGTGKTTSILALAHELLGPN--YREAVMEL   82 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~~~---------------------~~~ll~G~~G~GKt~la~~l~~~l~~~~--~~~~~~~~   82 (331)
                      .+.|++.++..+.-.+-+|..                     .|+||+|+||+||+.+|+.+++......  .+..+..+
T Consensus       451 ~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~v  530 (915)
T PTZ00111        451 SIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSV  530 (915)
T ss_pred             eEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccc
Confidence            577898888866555544321                     1699999999999999999998653221  01122222


Q ss_pred             ecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeC
Q 020071           83 NASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACN  149 (331)
Q Consensus        83 ~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~  149 (331)
                      ++....  ......-..+...+..+..+.+++++|||++.++...+.+|++.||+.             +..+++|.++|
T Consensus       531 gLTa~~--~~~d~~tG~~~le~GaLvlAdgGtL~IDEidkms~~~Q~aLlEaMEqqtIsI~KaGi~~tL~ar~rVIAAaN  608 (915)
T PTZ00111        531 GLTASI--KFNESDNGRAMIQPGAVVLANGGVCCIDELDKCHNESRLSLYEVMEQQTVTIAKAGIVATLKAETAILASCN  608 (915)
T ss_pred             cccchh--hhcccccCcccccCCcEEEcCCCeEEecchhhCCHHHHHHHHHHHhCCEEEEecCCcceecCCCeEEEEEcC
Confidence            221110  000000000111111112356789999999999999999999999853             25788898888


Q ss_pred             CCC-------------CCChhhhccccee--eecCCCHHH
Q 020071          150 VSS-------------KIIEPIQSRCAIV--RFSRLSDEE  174 (331)
Q Consensus       150 ~~~-------------~l~~~l~sr~~~i--~~~~~~~~~  174 (331)
                      ...             .+++++.||+..+  .+.+++.+.
T Consensus       609 P~~gryd~~~s~~eni~Lp~~LLSRFDLIf~l~D~~d~~~  648 (915)
T PTZ00111        609 PINSRYNKNKAVIENINISPSLFTRFDLIYLVLDHIDQDT  648 (915)
T ss_pred             CcccccCcccCcccccCCChHHhhhhcEEEEecCCCChHH
Confidence            731             4779999998443  455555543

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

Probab=99.13  E-value=1.1e-08  Score=88.33  Aligned_cols=202  Identities=19%  Similarity=0.128  Sum_probs=132.7

Q ss_pred             CCCCccccCHHHHHHHHHHHHcCCCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHH
Q 020071           22 TKVCDIVGNLDAVARLGIIARDGNMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKM   99 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~   99 (331)
                      ..|+.+++.+..++.+....++-.+-  .+|+.|+.|+||..+|+++......  ...+|+.+||........-.+.   
T Consensus       201 ~~F~~~v~~S~~mk~~v~qA~k~AmlDAPLLI~GeTGTGKdLlAkaCH~~S~R--~~~pFlalNCA~lPe~~aEsEl---  275 (511)
T COG3283         201 SGFEQIVAVSPKMKHVVEQAQKLAMLDAPLLITGETGTGKDLLAKACHLASPR--HSKPFLALNCASLPEDAAESEL---  275 (511)
T ss_pred             cchHHHhhccHHHHHHHHHHHHhhccCCCeEEecCCCchHHHHHHHHhhcCcc--cCCCeeEeecCCCchhHhHHHH---
Confidence            36888999988888777776654321  2899999999999999998876543  3678999999765221111111   


Q ss_pred             HHhccc------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCC-------CCCC
Q 020071          100 FAQKKV------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVS-------SKII  155 (331)
Q Consensus       100 ~~~~~~------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~-------~~l~  155 (331)
                      +...+.      .+....+..|++||+..|++..|.+|++++.+.           ..++++|.+|...       .++-
T Consensus       276 FG~apg~~gk~GffE~AngGTVlLDeIgEmSp~lQaKLLRFL~DGtFRRVGee~Ev~vdVRVIcatq~nL~~lv~~g~fR  355 (511)
T COG3283         276 FGHAPGDEGKKGFFEQANGGTVLLDEIGEMSPRLQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQVNLVELVQKGKFR  355 (511)
T ss_pred             hcCCCCCCCccchhhhccCCeEEeehhhhcCHHHHHHHHHHhcCCceeecCCcceEEEEEEEEecccccHHHHHhcCchH
Confidence            111110      011245789999999999999999999999742           3467888776532       2344


Q ss_pred             hhhhcccce--eeecCCCH------HHHHHHHHHHHHhcCC---CCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hCCC
Q 020071          156 EPIQSRCAI--VRFSRLSD------EEILSRLMVVVQEEKV---PYVPEGLEAIIFTA-DGDMRQALNNLQATY--SGFR  221 (331)
Q Consensus       156 ~~l~sr~~~--i~~~~~~~------~~~~~~l~~~~~~~~~---~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~~~  221 (331)
                      ..+--|..+  ++++|+.+      .-..-++++.+.+.+.   +++++.+.++.++. .||.|++.|.+-.++  -.+.
T Consensus       356 eDLfyRLNVLtl~~PpLRer~~di~pL~e~Fv~q~s~elg~p~pkl~~~~~~~L~~y~WpGNVRqL~N~iyRA~s~~Eg~  435 (511)
T COG3283         356 EDLFYRLNVLTLNLPPLRERPQDIMPLAELFVQQFSDELGVPRPKLAADLLTVLTRYAWPGNVRQLKNAIYRALTLLEGY  435 (511)
T ss_pred             HHHHHHhheeeecCCccccCcccchHHHHHHHHHHHHHhCCCCCccCHHHHHHHHHcCCCccHHHHHHHHHHHHHHhccC
Confidence            445455444  45555554      2234456666666664   46778888888765 799999999985443  2344


Q ss_pred             ccchhhh
Q 020071          222 FVNQENV  228 (331)
Q Consensus       222 ~i~~~~v  228 (331)
                      .++.+++
T Consensus       436 ~l~i~~i  442 (511)
T COG3283         436 ELRIEDI  442 (511)
T ss_pred             ccchhhc
Confidence            4555544

>TIGR00368 Mg chelatase-related protein

Probab=99.11  E-value=3.5e-09  Score=98.72  Aligned_cols=150  Identities=27%  Similarity=0.279  Sum_probs=96.9

Q ss_pred             CCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-CC---------hH
Q 020071           22 TKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-RG---------ID   91 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-~~---------~~   91 (331)
                      ..|.++.|++.+++.+...+..+.  |++|.||+|+|||++++.+...+.... ...+++...... .+         ..
T Consensus       189 ~d~~dv~Gq~~~~~al~~aa~~g~--~vlliG~pGsGKTtlar~l~~llp~~~-~~~~le~~~i~s~~g~~~~~~~~~~~  265 (499)
T TIGR00368       189 LDLKDIKGQQHAKRALEIAAAGGH--NLLLFGPPGSGKTMLASRLQGILPPLT-NEEAIETARIWSLVGKLIDRKQIKQR  265 (499)
T ss_pred             CCHHHhcCcHHHHhhhhhhccCCC--EEEEEecCCCCHHHHHHHHhcccCCCC-CcEEEeccccccchhhhccccccccC
Confidence            378999999999998888887664  699999999999999999988653221 111111111000 00         00


Q ss_pred             hHH---------HHHHHH-HhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEee
Q 020071           92 VVR---------NKIKMF-AQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALAC  148 (331)
Q Consensus        92 ~i~---------~~i~~~-~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~  148 (331)
                      .++         ..+... ...+-......+.+++|||++.++...++.|+..||+.             +.++++|.++
T Consensus       266 Pf~~p~~s~s~~~~~ggg~~~~pG~i~lA~~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~  345 (499)
T TIGR00368       266 PFRSPHHSASKPALVGGGPIPLPGEISLAHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAAM  345 (499)
T ss_pred             CccccccccchhhhhCCccccchhhhhccCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEec
Confidence            000         000000 00000111345789999999999999999999999853             3577888888


Q ss_pred             CCC-----------------------CCCChhhhcccce-eeecCCCHHH
Q 020071          149 NVS-----------------------SKIIEPIQSRCAI-VRFSRLSDEE  174 (331)
Q Consensus       149 ~~~-----------------------~~l~~~l~sr~~~-i~~~~~~~~~  174 (331)
                      |.-                       .++..++.+|+.. +.+++++.++
T Consensus       346 Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllDR~dl~~~~~~~~~~~  395 (499)
T TIGR00368       346 NPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLDRIDLSVEVPLLPPEK  395 (499)
T ss_pred             CCcccCcCCCCcccccCCHHHHHHHhhhccHhHHhhCCEEEEEcCCCHHH
Confidence            752                       1578889999865 4777776544

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

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

Probab=99.11  E-value=2.4e-09  Score=104.81  Aligned_cols=187  Identities=18%  Similarity=0.121  Sum_probs=131.3

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHc------------CCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARD------------GNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~------------~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      +-..|+++-|-+..+..|+.++-.            =..|. +||+||||+|||..|++++...........|..-.+.+
T Consensus       260 ~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD  339 (1080)
T KOG0732|consen  260 SSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGAD  339 (1080)
T ss_pred             cccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCch
Confidence            345789999999999999888653            12344 99999999999999999999886554444444433333


Q ss_pred             CCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--CCcEEEEe
Q 020071           87 DRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEIYS--NSTRFALA  147 (331)
Q Consensus        87 ~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~~~--~~~~~I~~  147 (331)
                      ..+      ..+.+-...++.       ...+.+++.||+|.+.+           .....|+.+|+..+  ..+++|.+
T Consensus       340 ~lskwvgEaERqlrllFeeA~-------k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigA  412 (1080)
T KOG0732|consen  340 CLSKWVGEAERQLRLLFEEAQ-------KTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGA  412 (1080)
T ss_pred             hhccccCcHHHHHHHHHHHHh-------ccCceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcc
Confidence            211      123444444333       33478999999998753           12345667777544  45677778


Q ss_pred             eCCCCCCChhhhccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHH
Q 020071          148 CNVSSKIIEPIQSRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL  213 (331)
Q Consensus       148 ~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l  213 (331)
                      +|.+..+.++++...   ..+.|+-++.+....++.-.-.+..-.+.......+++.+.|-.+.-+..+
T Consensus       413 TnRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaL  481 (1080)
T KOG0732|consen  413 TNRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKAL  481 (1080)
T ss_pred             cCCccccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHH
Confidence            899999999998864   347888888888888877666666677889999999998876555544444

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=99.10  E-value=2.7e-09  Score=90.04  Aligned_cols=124  Identities=20%  Similarity=0.291  Sum_probs=89.4

Q ss_pred             cccCHHHHHHHHHHHHc----CC--CCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE-----eecCCCCChHhHH
Q 020071           27 IVGNLDAVARLGIIARD----GN--MPN-LILAGPPGTGKTTSILALAHELLGPNYREAVME-----LNASDDRGIDVVR   94 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~----~~--~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~-----~~~~~~~~~~~i~   94 (331)
                      +.||.-+.+.+.+.+++    ..  .|- +=|+|++||||..+++.+++.+...+...+++.     .+.+....++..+
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~Yk  163 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIEDYK  163 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHHHH
Confidence            66887777766666654    32  233 589999999999999999999987766655543     3344444555555


Q ss_pred             HHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-------CCcEEEEeeCCCC
Q 020071           95 NKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-------NSTRFALACNVSS  152 (331)
Q Consensus        95 ~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-------~~~~~I~~~~~~~  152 (331)
                      +.++........  ...+.++|+||+|+|++...++|..+++.+|       .++.|||.+|.-.
T Consensus       164 ~eL~~~v~~~v~--~C~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~gg  226 (344)
T KOG2170|consen  164 EELKNRVRGTVQ--ACQRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAGG  226 (344)
T ss_pred             HHHHHHHHHHHH--hcCCceEEechhhhcCHhHHHHHhhhhccccccccccccceEEEEEcCCcc
Confidence            555554443332  4678899999999999999999999998554       3568999987643

>PF13173 AAA_14: AAA domain

Probab=99.08  E-value=1.5e-09  Score=83.20  Aligned_cols=119  Identities=27%  Similarity=0.375  Sum_probs=80.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHH-HHHHHHHhcccCCCCCCceEEEEeCCCCCCHH
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVR-NKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG  126 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~-~~i~~~~~~~~~~~~~~~~vviide~d~l~~~  126 (331)
                      .++++||.|+|||++++.+++.+.   ....++.++..+........ +..+.+.+. .   ..+..+|+|||++.++ +
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~-~---~~~~~~i~iDEiq~~~-~   75 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPDLLEYFLEL-I---KPGKKYIFIDEIQYLP-D   75 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhhhHHHHHHh-h---ccCCcEEEEehhhhhc-c
Confidence            379999999999999999999884   23556777766542211110 112222222 1   2367899999999996 4


Q ss_pred             HHHHHHHHHHHhcCCcEEEEeeCCCC----CCChhhhcccceeeecCCCHHHH
Q 020071          127 AQQALRRTMEIYSNSTRFALACNVSS----KIIEPIQSRCAIVRFSRLSDEEI  175 (331)
Q Consensus       127 ~~~~Ll~~le~~~~~~~~I~~~~~~~----~l~~~l~sr~~~i~~~~~~~~~~  175 (331)
                      ....+..+.+.. .+..+|+++....    .....+..|...+++.|++-.|.
T Consensus        76 ~~~~lk~l~d~~-~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   76 WEDALKFLVDNG-PNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             HHHHHHHHHHhc-cCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            556666666654 5677888776543    44567778889999999997764

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

Probab=99.05  E-value=1.7e-08  Score=94.29  Aligned_cols=188  Identities=12%  Similarity=0.125  Sum_probs=121.4

Q ss_pred             CccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC--ChHhHHHHHHHH
Q 020071           25 CDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR--GIDVVRNKIKMF  100 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--~~~~i~~~i~~~  100 (331)
                      .|++--+...+.-.+..-..  ..++++|+||+|+|||.+++++++.+.. +....+..++|+...  ..+.+...+..+
T Consensus       408 ~d~i~~~s~kke~~n~~~spv~~~~~Ill~G~~GsGKT~L~kal~~~~~k-~~~~hv~~v~Cs~l~~~~~e~iQk~l~~v  486 (952)
T KOG0735|consen  408 HDFIQVPSYKKENANQELSPVFRHGNILLNGPKGSGKTNLVKALFDYYSK-DLIAHVEIVSCSTLDGSSLEKIQKFLNNV  486 (952)
T ss_pred             CceeecchhhhhhhhhhcccccccccEEEeCCCCCCHhHHHHHHHHHhcc-ccceEEEEEechhccchhHHHHHHHHHHH
Confidence            45555444444333322221  2345999999999999999999999863 222334445565543  345566666555


Q ss_pred             HhcccCCCCCCceEEEEeCCCCCCH----------HHHHHHH----HHHHH---hcCCcEEEEeeCCCCCCChhhhcc--
Q 020071          101 AQKKVTLPPGKHKVVVLDEADSMTA----------GAQQALR----RTMEI---YSNSTRFALACNVSSKIIEPIQSR--  161 (331)
Q Consensus       101 ~~~~~~~~~~~~~vviide~d~l~~----------~~~~~Ll----~~le~---~~~~~~~I~~~~~~~~l~~~l~sr--  161 (331)
                      .....   .-.+.+|++|+.|.+..          ...+.|.    ..+..   ......||++.+....+.+.+.+-  
T Consensus       487 fse~~---~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~  563 (952)
T KOG0735|consen  487 FSEAL---WYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLL  563 (952)
T ss_pred             HHHHH---hhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccc
Confidence            55444   23467999999998732          1112222    33332   334456777777777888888764  


Q ss_pred             cc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH
Q 020071          162 CA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT  216 (331)
Q Consensus       162 ~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~  216 (331)
                      ++ ++.+++|...+..++|+..+++.......+.++.++..++| ..+.+.-..+.+
T Consensus       564 Fq~~~~L~ap~~~~R~~IL~~~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~ifVeRa  620 (952)
T KOG0735|consen  564 FQIVIALPAPAVTRRKEILTTIFSKNLSDITMDDLDFLSVKTEGYLATDLVIFVERA  620 (952)
T ss_pred             eEEEEecCCcchhHHHHHHHHHHHhhhhhhhhHHHHHHHHhcCCccchhHHHHHHHH
Confidence            43 46899999999999999999887766777888889999987 444444444443

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=99.05  E-value=2.5e-08  Score=82.69  Aligned_cols=211  Identities=21%  Similarity=0.219  Sum_probs=132.4

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC---
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG---   89 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~---   89 (331)
                      .|++...+|..+--.--+.+.+..+...+..+.. -+.++|+.|+|||.+.+++...+.+.  ....+.++......   
T Consensus        19 ~pf~~~~~~~~~~~~a~h~e~l~~l~~~i~d~qg-~~~vtGevGsGKTv~~Ral~~s~~~d--~~~~v~i~~~~~s~~~~   95 (269)
T COG3267          19 LPFSWDIQPGLDYWAADHNEALLMLHAAIADGQG-ILAVTGEVGSGKTVLRRALLASLNED--QVAVVVIDKPTLSDATL   95 (269)
T ss_pred             CCCccchhhhhhhhhhhhhHHHHHHHHHHhcCCc-eEEEEecCCCchhHHHHHHHHhcCCC--ceEEEEecCcchhHHHH
Confidence            3555555555444455577788888888888762 26999999999999999888777643  11223333322211   


Q ss_pred             ---------------hHhHHHHHHHHHhcccCCCCCCc-eEEEEeCCCCCCHHHHHHHHHHHH---HhcCCcEEEEeeCC
Q 020071           90 ---------------IDVVRNKIKMFAQKKVTLPPGKH-KVVVLDEADSMTAGAQQALRRTME---IYSNSTRFALACNV  150 (331)
Q Consensus        90 ---------------~~~i~~~i~~~~~~~~~~~~~~~-~vviide~d~l~~~~~~~Ll~~le---~~~~~~~~I~~~~~  150 (331)
                                     ....-+.+........  ..+.+ -++++||++.++.+..+.|..+.+   +......++++...
T Consensus        96 ~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~--~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp  173 (269)
T COG3267          96 LEAIVADLESQPKVNVNAVLEQIDRELAALV--KKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQP  173 (269)
T ss_pred             HHHHHHHhccCccchhHHHHHHHHHHHHHHH--HhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCc
Confidence                           1101111111111111  02334 799999999999999888887765   23333445555432


Q ss_pred             C--C----CCChhhhcccce-eeecCCCHHHHHHHHHHHHHhcCCC---CCHHHHHHHHHhcCCCHHHHHHHHHHH----
Q 020071          151 S--S----KIIEPIQSRCAI-VRFSRLSDEEILSRLMVVVQEEKVP---YVPEGLEAIIFTADGDMRQALNNLQAT----  216 (331)
Q Consensus       151 ~--~----~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~~---i~~~~~~~l~~~~~g~~r~~~~~l~~~----  216 (331)
                      .  .    -....+..|+.+ +..+|++.++...+++.+++..+..   ++++++..+...+.|-|+..-+.+..+    
T Consensus       174 ~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~Al~~a  253 (269)
T COG3267         174 KLRPRLRLPVLRELEQRIDIRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATLALDAA  253 (269)
T ss_pred             ccchhhchHHHHhhhheEEEEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHHHHHHH
Confidence            1  1    112455668888 9999999999999999998876532   578899999999999777655554332    


Q ss_pred             -hhCCCccchhhh
Q 020071          217 -YSGFRFVNQENV  228 (331)
Q Consensus       217 -~~~~~~i~~~~v  228 (331)
                       ..+...|+...+
T Consensus       254 ~~a~~~~v~~a~~  266 (269)
T COG3267         254 YSAGEDGVSEAEI  266 (269)
T ss_pred             HHcCCCccchhhc
Confidence             244555555443

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

Probab=99.05  E-value=1.9e-09  Score=91.30  Aligned_cols=128  Identities=20%  Similarity=0.291  Sum_probs=91.2

Q ss_pred             CCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           22 TKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      -+|+++-|.-.++..++..+.=           | ++|- ++||||||+|||.++++++..+     +.+++.+.++...
T Consensus       129 ~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~m-----g~nfl~v~ss~lv  203 (388)
T KOG0651|consen  129 ISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATM-----GVNFLKVVSSALV  203 (388)
T ss_pred             cCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhc-----CCceEEeeHhhhh
Confidence            3888999988888888776531           2 3344 7999999999999999999998     6777776654431


Q ss_pred             ----C--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHH-----hcCCcEEEE
Q 020071           89 ----G--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEI-----YSNSTRFAL  146 (331)
Q Consensus        89 ----~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~-----~~~~~~~I~  146 (331)
                          +  ...|++....+...       .+.++++||+|...           .+.+..|.++++.     .-..+.+|+
T Consensus       204 ~kyiGEsaRlIRemf~yA~~~-------~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~Im  276 (388)
T KOG0651|consen  204 DKYIGESARLIRDMFRYAREV-------IPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIM  276 (388)
T ss_pred             hhhcccHHHHHHHHHHHHhhh-------CceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEEE
Confidence                1  12445544444333       35899999998662           2345566666653     235788999


Q ss_pred             eeCCCCCCChhhhcc
Q 020071          147 ACNVSSKIIEPIQSR  161 (331)
Q Consensus       147 ~~~~~~~l~~~l~sr  161 (331)
                      ++|+++-|.|+|.+-
T Consensus       277 atNrpdtLdpaLlRp  291 (388)
T KOG0651|consen  277 ATNRPDTLDPALLRP  291 (388)
T ss_pred             ecCCccccchhhcCC
Confidence            999999999998774

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

Probab=99.01  E-value=8.1e-09  Score=87.86  Aligned_cols=171  Identities=22%  Similarity=0.333  Sum_probs=108.0

Q ss_pred             cccCHHHHHHHH--------HHHHc---C----CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC--
Q 020071           27 IVGNLDAVARLG--------IIARD---G----NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG--   89 (331)
Q Consensus        27 ~ig~~~~~~~l~--------~~l~~---~----~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--   89 (331)
                      ++||+++++.|.        +.-..   .    .-+++|+.||.|+|||.+|+.+|+.+     +.+|.--++.....  
T Consensus        63 VIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~L-----nVPFaiADATtLTEAG  137 (408)
T COG1219          63 VIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKIL-----NVPFAIADATTLTEAG  137 (408)
T ss_pred             eecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHh-----CCCeeeccccchhhcc
Confidence            689999987542        11111   1    12359999999999999999999999     66776555543311  


Q ss_pred             --hHhHHHHHHHHHhcc-cCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHH-----hc--------
Q 020071           90 --IDVVRNKIKMFAQKK-VTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEI-----YS--------  139 (331)
Q Consensus        90 --~~~i~~~i~~~~~~~-~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~-----~~--------  139 (331)
                        .+++...+....+.. +....+++++|+|||+|++..              ..|++|++++|.     ||        
T Consensus       138 YVGEDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGTvasVPPqGGRKHP~  217 (408)
T COG1219         138 YVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTVASVPPQGGRKHPQ  217 (408)
T ss_pred             ccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCceeccCCCCCCCCCc
Confidence              133444443333322 222246789999999998843              469999999983     22        


Q ss_pred             ------CCcEEEEeeCC------------------------C----------------------CCCChhhhccccee-e
Q 020071          140 ------NSTRFALACNV------------------------S----------------------SKIIEPIQSRCAIV-R  166 (331)
Q Consensus       140 ------~~~~~I~~~~~------------------------~----------------------~~l~~~l~sr~~~i-~  166 (331)
                            ++.-++|+|--                        .                      ..+.|.+.-|..++ .
T Consensus       218 Qe~iqvDT~NILFIcgGAF~GlekiI~~R~~~~~iGF~a~~~~~~~~~~~~~~l~~vepeDLvkFGLIPEfIGRlPvia~  297 (408)
T COG1219         218 QEFIQVDTSNILFICGGAFAGLEKIIKKRLGKKGIGFGAEVKSKSKKKEEGELLKQVEPEDLVKFGLIPEFIGRLPVIAT  297 (408)
T ss_pred             cceEEEcccceeEEeccccccHHHHHHHhccCCcccccccccchhhhhhHHHHHHhcChHHHHHcCCcHHHhcccceeee
Confidence                  11123333210                        0                      12557777777665 8


Q ss_pred             ecCCCHHHHHHHHHH-----------HHHhcC--CCCCHHHHHHHHHhc
Q 020071          167 FSRLSDEEILSRLMV-----------VVQEEK--VPYVPEGLEAIIFTA  202 (331)
Q Consensus       167 ~~~~~~~~~~~~l~~-----------~~~~~~--~~i~~~~~~~l~~~~  202 (331)
                      +.+++.+.+.++|..           .+..++  +.++++++..+++.+
T Consensus       298 L~~Lde~aLv~ILtePkNAlvKQYq~Lf~~d~V~L~F~~~AL~~IA~~A  346 (408)
T COG1219         298 LEELDEDALVQILTEPKNALVKQYQKLFEMDGVELEFTEEALKAIAKKA  346 (408)
T ss_pred             hhhcCHHHHHHHHhcccHHHHHHHHHHhcccCceEEEcHHHHHHHHHHH
Confidence            889999998888743           122233  346888888888654

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

Probab=98.99  E-value=2.2e-08  Score=88.91  Aligned_cols=163  Identities=18%  Similarity=0.072  Sum_probs=106.9

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC----CCCceE------------------
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN----YREAVM------------------   80 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~------------------   80 (331)
                      .|.-++|++.....|....-.-.+..+|+-|+.|+|||+++++++..|....    +.+++-                  
T Consensus        15 pf~aivGqd~lk~aL~l~av~P~iggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P~~~c~~c~~k~~e~   94 (423)
T COG1239          15 PFTAIVGQDPLKLALGLNAVDPQIGGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDPEEMCDECRAKGDEL   94 (423)
T ss_pred             chhhhcCchHHHHHHhhhhcccccceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCChhhhhHHHHhhcccc
Confidence            5667899999999877666666666799999999999999999999885321    100000                  


Q ss_pred             -----------EeecCCC------CChHhHHHHHHH--HHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH----
Q 020071           81 -----------ELNASDD------RGIDVVRNKIKM--FAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI----  137 (331)
Q Consensus        81 -----------~~~~~~~------~~~~~i~~~i~~--~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~----  137 (331)
                                 .++.+..      .|.=.+...++.  ....+--+..+++.|++|||+..|....++.|+..+++    
T Consensus        95 ~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d~lvd~LLd~aaeG~n~  174 (423)
T COG1239          95 EWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDDHLVDALLDVAAEGVND  174 (423)
T ss_pred             ccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccHHHHHHHHHHHHhCCce
Confidence                       0000000      000011111111  00112223367899999999999999999999999986    


Q ss_pred             ---------hcCCcEEEEeeCCC-CCCChhhhccc-ceeeecCC-CHHHHHHHHHHHHHh
Q 020071          138 ---------YSNSTRFALACNVS-SKIIEPIQSRC-AIVRFSRL-SDEEILSRLMVVVQE  185 (331)
Q Consensus       138 ---------~~~~~~~I~~~~~~-~~l~~~l~sr~-~~i~~~~~-~~~~~~~~l~~~~~~  185 (331)
                               .|.++.+|.++|.. ..|-+.|+.|+ ..+...++ +.++..+++.+....
T Consensus       175 vereGisi~hpa~fvligTmNPEeGeLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~~~f  234 (423)
T COG1239         175 VEREGISIRHPARFLLIGTMNPEEGELRPQLLDRFGLEVDTHYPLDLEERVEIIRRRLAF  234 (423)
T ss_pred             eeeCceeeccCccEEEEeecCccccccchhhHhhhcceeeccCCCCHHHHHHHHHHHHHh
Confidence                     34567778888764 58999999995 44555544 456666666665543

>PRK12377 putative replication protein; Provisional

Probab=98.97  E-value=3.3e-09  Score=90.03  Aligned_cols=126  Identities=22%  Similarity=0.312  Sum_probs=78.6

Q ss_pred             hhcCCCCCCccc----cCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCCh
Q 020071           17 EKYRPTKVCDIV----GNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGI   90 (331)
Q Consensus        17 ~~~~p~~~~~~i----g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   90 (331)
                      ..++..+|+.+.    |+..++......+..-  ...+++|+||+|+|||++|.++++.+...+.  .++.++..+.  .
T Consensus        66 ~~~~~~tFdnf~~~~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~--~v~~i~~~~l--~  141 (248)
T PRK12377         66 PLHRKCSFANYQVQNDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHLAAAIGNRLLAKGR--SVIVVTVPDV--M  141 (248)
T ss_pred             cccccCCcCCcccCChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--CeEEEEHHHH--H
Confidence            445666788875    3444555555554431  2245999999999999999999999865533  3333333221  1


Q ss_pred             HhHHHHHH------HHHhcccCCCCCCceEEEEeCC--CCCCHHHHHHHHHHHHHhcC-CcEEEEeeCCC
Q 020071           91 DVVRNKIK------MFAQKKVTLPPGKHKVVVLDEA--DSMTAGAQQALRRTMEIYSN-STRFALACNVS  151 (331)
Q Consensus        91 ~~i~~~i~------~~~~~~~~~~~~~~~vviide~--d~l~~~~~~~Ll~~le~~~~-~~~~I~~~~~~  151 (331)
                      ..+.....      .....     .....++||||+  +..++..++.|..+++.... ....|++||..
T Consensus       142 ~~l~~~~~~~~~~~~~l~~-----l~~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl~  206 (248)
T PRK12377        142 SRLHESYDNGQSGEKFLQE-----LCKVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNLN  206 (248)
T ss_pred             HHHHHHHhccchHHHHHHH-----hcCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCCC
Confidence            11111110      01000     234679999999  56677888899999986544 46788888853

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

Probab=98.97  E-value=4.2e-09  Score=89.70  Aligned_cols=158  Identities=22%  Similarity=0.264  Sum_probs=100.0

Q ss_pred             CCccccCHHHHHHHHHHHHc------CC-------CCe-EEEeCCCCccHHHHHHHHHHHhcCC----CCCCceEEeecC
Q 020071           24 VCDIVGNLDAVARLGIIARD------GN-------MPN-LILAGPPGTGKTTSILALAHELLGP----NYREAVMELNAS   85 (331)
Q Consensus        24 ~~~~ig~~~~~~~l~~~l~~------~~-------~~~-~ll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~   85 (331)
                      |+.++.....++++..++..      .+       ... +|++||||+|||++-+++|+.+.-.    -+....+++|+.
T Consensus       141 WEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinsh  220 (423)
T KOG0744|consen  141 WESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSH  220 (423)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehh
Confidence            45566666666666555432      11       112 6999999999999999999998521    123356788875


Q ss_pred             CCCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH---------------HHHHHHHHHHHHhc--CCc
Q 020071           86 DDRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA---------------GAQQALRRTMEIYS--NST  142 (331)
Q Consensus        86 ~~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~---------------~~~~~Ll~~le~~~--~~~  142 (331)
                      ...+      ...+....+...+..-.  .+.--.|+|||++.+..               ...|+|+.-++...  +++
T Consensus       221 sLFSKWFsESgKlV~kmF~kI~ELv~d--~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~Nv  298 (423)
T KOG0744|consen  221 SLFSKWFSESGKLVAKMFQKIQELVED--RGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNV  298 (423)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHHhC--CCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCE
Confidence            4321      12222333332222210  23345788999988732               24788888888543  455


Q ss_pred             EEEEeeCCCCCCChhhhcccce-eeecCCCHHHHHHHHHHHH
Q 020071          143 RFALACNVSSKIIEPIQSRCAI-VRFSRLSDEEILSRLMVVV  183 (331)
Q Consensus       143 ~~I~~~~~~~~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~  183 (331)
                      .++.++|-.+.+..++..|+.+ ..+.||+..-+.++++.-.
T Consensus       299 liL~TSNl~~siD~AfVDRADi~~yVG~Pt~~ai~~Ilksci  340 (423)
T KOG0744|consen  299 LILATSNLTDSIDVAFVDRADIVFYVGPPTAEAIYEILKSCI  340 (423)
T ss_pred             EEEeccchHHHHHHHhhhHhhheeecCCccHHHHHHHHHHHH
Confidence            4445555568899999999865 4788998888888876643

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]

Probab=98.97  E-value=7.8e-08  Score=86.61  Aligned_cols=200  Identities=18%  Similarity=0.198  Sum_probs=128.5

Q ss_pred             ccccCHHHHHHHHHHHHcCC--CC----------eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH
Q 020071           26 DIVGNLDAVARLGIIARDGN--MP----------NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV   93 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~~--~~----------~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i   93 (331)
                      +|.||+++++.|.-++-+|.  .+          |+++.|.||+.|+.+.+.+.+-....     .+ ..+....|+...
T Consensus       343 EIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapRg-----vY-TTGrGSSGVGLT  416 (721)
T KOG0482|consen  343 EIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPRG-----VY-TTGRGSSGVGLT  416 (721)
T ss_pred             hhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCccc-----ce-ecCCCCCccccc
Confidence            78899999998887776531  11          48999999999999999998865321     22 222222232222


Q ss_pred             HHHHHHHHhcccCC-----CCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeCCCC---
Q 020071           94 RNKIKMFAQKKVTL-----PPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACNVSS---  152 (331)
Q Consensus        94 ~~~i~~~~~~~~~~-----~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~~~~---  152 (331)
                      ....+.-.+..+.+     --++.+|+.|||+|+|.+...-++.++||..             ...|.++.++|...   
T Consensus       417 AAVmkDpvTgEM~LEGGALVLAD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIaKAGI~TtLNAR~sILaAANPayGRY  496 (721)
T KOG0482|consen  417 AAVMKDPVTGEMVLEGGALVLADGGICCIDEFDKMDESDRTAIHEVMEQQTISIAKAGINTTLNARTSILAAANPAYGRY  496 (721)
T ss_pred             hhhhcCCCCCeeEeccceEEEccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhhhhccccchhhhHHhhhhcCcccccc
Confidence            22222111111111     1246889999999999999999999999853             24455666666521   


Q ss_pred             ----------CCChhhhcccce-------------------------------eeecCCCHHHHHHHHHHHHHhcCCCCC
Q 020071          153 ----------KIIEPIQSRCAI-------------------------------VRFSRLSDEEILSRLMVVVQEEKVPYV  191 (331)
Q Consensus       153 ----------~l~~~l~sr~~~-------------------------------i~~~~~~~~~~~~~l~~~~~~~~~~i~  191 (331)
                                .++.++.||+..                               ..|.|++.+-++.++. .|+..+-.++
T Consensus       497 nprrs~e~NI~LPaALLSRFDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fepl~~~~mR~yI~-~ak~~~P~vp  575 (721)
T KOG0482|consen  497 NPRRSPEQNINLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFEPLDPNLMRRYIS-LAKRKNPVVP  575 (721)
T ss_pred             CcccChhHhcCCcHHHHHhhhhhhhhccCCcccchHHHHHHhHhhhccCCCCCccCCCCCHHHHHHHHH-HHhhcCCCCC
Confidence                      478899998643                               5788888888888875 4566666778


Q ss_pred             HHHHHHHHHh--------------cCCCHHHHHHHHHHH---h--hCCCccchhhhhhhc
Q 020071          192 PEGLEAIIFT--------------ADGDMRQALNNLQAT---Y--SGFRFVNQENVFKVC  232 (331)
Q Consensus       192 ~~~~~~l~~~--------------~~g~~r~~~~~l~~~---~--~~~~~i~~~~v~~~~  232 (331)
                      ++..+++...              +.-.+|.++.+++-.   +  .-...+..++|.+.+
T Consensus       576 ~~l~dyi~~AYv~~Rrea~~~~~~t~ttpRtLL~IlRls~AlarLRls~~V~~~DV~EAL  635 (721)
T KOG0482|consen  576 EALADYITGAYVELRREARSSKDFTYTTPRTLLGILRLSTALARLRLSDSVEEDDVNEAL  635 (721)
T ss_pred             HHHHHHHHHHHHHHHHHhhccCCCcccCHHHHHHHHHHHHHHHHhhhccccchhhHHHHH
Confidence            8887777633              124678777777532   1  223445666665543

>PRK08116 hypothetical protein; Validated

Probab=98.94  E-value=6.5e-09  Score=89.76  Aligned_cols=146  Identities=19%  Similarity=0.212  Sum_probs=88.8

Q ss_pred             hhcCCCCCCcccc---CHHHHHHHHHHHHc---CCCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           17 EKYRPTKVCDIVG---NLDAVARLGIIARD---GNMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        17 ~~~~p~~~~~~ig---~~~~~~~l~~~l~~---~~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      .+|+-.+|+.+..   +..++....+.+.+   ....  .++|+|++|+|||++|.++++.+...  +.+++.++..+. 
T Consensus        77 ~~~~~~tFdnf~~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~~~~l-  153 (268)
T PRK08116         77 EKFRNSTFENFLFDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVNFPQL-  153 (268)
T ss_pred             HHHHhcchhcccCChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHHHH-
Confidence            5566667777653   33344445544442   1112  38999999999999999999998654  334555543321 


Q ss_pred             ChHhHHHHH--------HHHHhcccCCCCCCceEEEEeCC--CCCCHHHHHHHHHHHHHh-cCCcEEEEeeCCCC-----
Q 020071           89 GIDVVRNKI--------KMFAQKKVTLPPGKHKVVVLDEA--DSMTAGAQQALRRTMEIY-SNSTRFALACNVSS-----  152 (331)
Q Consensus        89 ~~~~i~~~i--------~~~~~~~~~~~~~~~~vviide~--d~l~~~~~~~Ll~~le~~-~~~~~~I~~~~~~~-----  152 (331)
                       ...+....        ..+...     .....++||||+  +..+...+..|..+++.. .....+|++||...     
T Consensus       154 -l~~i~~~~~~~~~~~~~~~~~~-----l~~~dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~~~eL~~  227 (268)
T PRK08116        154 -LNRIKSTYKSSGKEDENEIIRS-----LVNADLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLSLEELKN  227 (268)
T ss_pred             -HHHHHHHHhccccccHHHHHHH-----hcCCCEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHH
Confidence             01111110        001110     123569999999  556777888899988853 34567888888642     


Q ss_pred             CCChhhhcc----cceeeecCCC
Q 020071          153 KIIEPIQSR----CAIVRFSRLS  171 (331)
Q Consensus       153 ~l~~~l~sr----~~~i~~~~~~  171 (331)
                      .+...+.||    |..+.|...+
T Consensus       228 ~~~~ri~sRl~e~~~~v~~~g~d  250 (268)
T PRK08116        228 QYGKRIYDRILEMCTPVENEGKS  250 (268)
T ss_pred             HHhHHHHHHHHHcCEEEEeeCcC
Confidence            234566666    6667776655

>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []

Probab=98.92  E-value=4.3e-08  Score=69.96  Aligned_cols=87  Identities=29%  Similarity=0.495  Sum_probs=77.4

Q ss_pred             CCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHH
Q 020071          235 PHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQL  314 (331)
Q Consensus       235 ~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l  314 (331)
                      +++..+.++++.+.++++.++...+++++..|+++.+|+..+++.+....+++..+.+++..++++++++..|+++.+++
T Consensus         3 p~~~~i~~i~~~~~~~~~~~~~~~~~~l~~~G~s~~~Il~~l~~~l~~~~~~~~~k~~i~~~la~~e~rl~~G~~e~lQl   82 (89)
T PF08542_consen    3 PPPEVIEEILESCLNGDFKEARKKLYELLVEGYSASDILKQLHEVLVESDIPDSQKAEILKILAEIEYRLSDGASEILQL   82 (89)
T ss_dssp             --HHHHHHHHHHHHHTCHHHHHHHHHHHHHTT--HHHHHHHHHHHHHTSTSSHHHHHHHHHHHHHHHHHHHTTC-HHHHH
T ss_pred             CCHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHhHHHHCCCCHHHHH
Confidence            45678889999999999999999999999999999999999999888877889999999999999999999999999999


Q ss_pred             HHHHHHH
Q 020071          315 CGLLAKL  321 (331)
Q Consensus       315 ~~l~~~l  321 (331)
                      +.++.++
T Consensus        83 ~alva~~   89 (89)
T PF08542_consen   83 EALVAAF   89 (89)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhhC
Confidence            9999875

PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.91  E-value=1.5e-08  Score=98.65  Aligned_cols=117  Identities=23%  Similarity=0.357  Sum_probs=86.0

Q ss_pred             ccccCHHHHHHHHHHHHcC-----CC-Ce--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC----------
Q 020071           26 DIVGNLDAVARLGIIARDG-----NM-PN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD----------   87 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~-----~~-~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~----------   87 (331)
                      .++||++++..+..++..-     +. |.  ++|.||.|+|||.+|++++..+++.  ...++.++.+..          
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgs--e~~~IriDmse~~evskligsp  640 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGS--EENFIRLDMSEFQEVSKLIGSP  640 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCC--ccceEEechhhhhhhhhccCCC
Confidence            4889999999888887642     21 22  7999999999999999999999765  445676666531          


Q ss_pred             ---CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC
Q 020071           88 ---RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS  151 (331)
Q Consensus        88 ---~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~  151 (331)
                         .+.+....+-+...       ..++.||++||+|+.....++.|+..+++..           .+++||+|+|.-
T Consensus       641 ~gyvG~e~gg~Lteavr-------rrP~sVVLfdeIEkAh~~v~n~llq~lD~GrltDs~Gr~Vd~kN~I~IMTsn~~  711 (898)
T KOG1051|consen  641 PGYVGKEEGGQLTEAVK-------RRPYSVVLFEEIEKAHPDVLNILLQLLDRGRLTDSHGREVDFKNAIFIMTSNVG  711 (898)
T ss_pred             cccccchhHHHHHHHHh-------cCCceEEEEechhhcCHHHHHHHHHHHhcCccccCCCcEeeccceEEEEecccc
Confidence               22222222222222       3457899999999999999999999999532           577888888753

>PRK08181 transposase; Validated

Probab=98.89  E-value=1.3e-08  Score=87.38  Aligned_cols=104  Identities=20%  Similarity=0.279  Sum_probs=64.4

Q ss_pred             HHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH-----HHHHhcccCCCCCC
Q 020071           37 LGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI-----KMFAQKKVTLPPGK  111 (331)
Q Consensus        37 l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i-----~~~~~~~~~~~~~~  111 (331)
                      +..++..+.  +++|+||+|+|||+++.++++.+...+.  .++.++..+.  .+.+....     ......     ..+
T Consensus        99 ~~~~~~~~~--nlll~Gp~GtGKTHLa~Aia~~a~~~g~--~v~f~~~~~L--~~~l~~a~~~~~~~~~l~~-----l~~  167 (269)
T PRK08181         99 GDSWLAKGA--NLLLFGPPGGGKSHLAAAIGLALIENGW--RVLFTRTTDL--VQKLQVARRELQLESAIAK-----LDK  167 (269)
T ss_pred             HHHHHhcCc--eEEEEecCCCcHHHHHHHHHHHHHHcCC--ceeeeeHHHH--HHHHHHHHhCCcHHHHHHH-----Hhc
Confidence            335666543  6999999999999999999998755433  3333332211  11111100     000000     124


Q ss_pred             ceEEEEeCCCCCC--HHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          112 HKVVVLDEADSMT--AGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       112 ~~vviide~d~l~--~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      ..++||||++...  ...++.|..+++....+..+|+++|.+
T Consensus       168 ~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        168 FDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            5699999998774  445678889888655556788888764

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.88  E-value=1.7e-08  Score=89.31  Aligned_cols=165  Identities=23%  Similarity=0.302  Sum_probs=108.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC----hHhHHHHHHHHHhcc-cCCCCCCceEEEEeCCCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG----IDVVRNKIKMFAQKK-VTLPPGKHKVVVLDEADS  122 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~----~~~i~~~i~~~~~~~-~~~~~~~~~vviide~d~  122 (331)
                      ++|+.||+|+|||.+|+.+|+.+     +.+|.-.+|....-    .++++..+....... +....+...+|+|||+|+
T Consensus       228 NvLllGPtGsGKTllaqTLAr~l-----dVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDK  302 (564)
T KOG0745|consen  228 NVLLLGPTGSGKTLLAQTLARVL-----DVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDK  302 (564)
T ss_pred             cEEEECCCCCchhHHHHHHHHHh-----CCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhh
Confidence            59999999999999999999999     78888877765411    134444554444322 111245788999999999


Q ss_pred             CC--------------HHHHHHHHHHHHHh-------------cC------CcEEEEeeCC-------------------
Q 020071          123 MT--------------AGAQQALRRTMEIY-------------SN------STRFALACNV-------------------  150 (331)
Q Consensus       123 l~--------------~~~~~~Ll~~le~~-------------~~------~~~~I~~~~~-------------------  150 (331)
                      +.              +..|++|++++|..             +.      ++-++|++.-                   
T Consensus       303 i~~~~~~i~~~RDVsGEGVQQaLLKllEGtvVnVpeK~~~~~~rgd~vqiDTtnILFiasGAF~~Ldk~I~rR~~d~slG  382 (564)
T KOG0745|consen  303 ITKKAESIHTSRDVSGEGVQQALLKLLEGTVVNVPEKGSRRKPRGDTVQIDTTNILFIASGAFVGLDKIISRRLDDKSLG  382 (564)
T ss_pred             hcccCccccccccccchhHHHHHHHHhcccEEcccCCCCCCCCCCCeEEEeccceEEEecccccchHHHHHHhhcchhcc
Confidence            85              34699999999821             11      1113333210                   


Q ss_pred             ---C------------------------------------CCCChhhhccccee-eecCCCHHHHHHHHHHH--------
Q 020071          151 ---S------------------------------------SKIIEPIQSRCAIV-RFSRLSDEEILSRLMVV--------  182 (331)
Q Consensus       151 ---~------------------------------------~~l~~~l~sr~~~i-~~~~~~~~~~~~~l~~~--------  182 (331)
                         +                                    .-+.|.+.-|+.++ .|.+++.+++..+|..-        
T Consensus       383 Fg~~s~~~vr~~~~~~s~~~~~~~~~~~lL~~~~~~DLisfGmIPEfVGRfPVlVplh~L~~~~Lv~VLtEPknaL~~Qy  462 (564)
T KOG0745|consen  383 FGAPSSKGVRANMATKSGVENDAEKRDELLEKVESGDLISFGMIPEFVGRFPVLVPLHSLDEDQLVRVLTEPKNALGKQY  462 (564)
T ss_pred             cCCCCCccchhhcccccCcchhHHHHHHHHhhccccchhhhcCcHHHhcccceEeeccccCHHHHHHHHhcchhhHHHHH
Confidence               0                                    01456677777664 89999999988887431        


Q ss_pred             ---HHhcC--CCCCHHHHHHHHHhc---CCCHHHHHHHHHHHh
Q 020071          183 ---VQEEK--VPYVPEGLEAIIFTA---DGDMRQALNNLQATY  217 (331)
Q Consensus       183 ---~~~~~--~~i~~~~~~~l~~~~---~g~~r~~~~~l~~~~  217 (331)
                         +...+  +.+++.+++.+++.+   +--.|-+..+++.+.
T Consensus       463 k~lf~~~nV~L~fTe~Al~~IAq~Al~r~TGARgLRsIlE~~L  505 (564)
T KOG0745|consen  463 KKLFGMDNVELHFTEKALEAIAQLALKRKTGARGLRSILESLL  505 (564)
T ss_pred             HHHhccCCeeEEecHHHHHHHHHHHHhhccchHHHHHHHHHHH
Confidence               22222  457899999998775   334666666776653

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.88  E-value=1.3e-06  Score=89.04  Aligned_cols=182  Identities=15%  Similarity=0.117  Sum_probs=117.3

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee--cCCCCChHhHHHHH
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN--ASDDRGIDVVRNKI   97 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~--~~~~~~~~~i~~~i   97 (331)
                      .|..-.+++-+++....|...   ...+-++++||+|+|||+++..+....     + ++..++  ..+......+..++
T Consensus         9 ~p~~~~~~~~R~rl~~~l~~~---~~~~~~~v~apaG~GKTtl~~~~~~~~-----~-~~~w~~l~~~d~~~~~f~~~l~   79 (903)
T PRK04841          9 RPVRLHNTVVRERLLAKLSGA---NNYRLVLVTSPAGYGKTTLISQWAAGK-----N-NLGWYSLDESDNQPERFASYLI   79 (903)
T ss_pred             CCCCccccCcchHHHHHHhcc---cCCCeEEEECCCCCCHHHHHHHHHHhC-----C-CeEEEecCcccCCHHHHHHHHH
Confidence            466667888888888877532   233447999999999999999988654     2 333333  22221111111111


Q ss_pred             HHH------------------------------HhcccCCCCCCceEEEEeCCCCCCHHH-HHHHHHHHHHhcCCcEEEE
Q 020071           98 KMF------------------------------AQKKVTLPPGKHKVVVLDEADSMTAGA-QQALRRTMEIYSNSTRFAL  146 (331)
Q Consensus        98 ~~~------------------------------~~~~~~~~~~~~~vviide~d~l~~~~-~~~Ll~~le~~~~~~~~I~  146 (331)
                      ..+                              .....  ...++-++||||+|.+.... .+.+..++...+++..+|+
T Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~  157 (903)
T PRK04841         80 AALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELA--DWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVV  157 (903)
T ss_pred             HHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHh--cCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEE
Confidence            111                              00000  02457899999999997554 4466677777788888888


Q ss_pred             eeCCCCCC-Chhhhcccceeeec----CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHH
Q 020071          147 ACNVSSKI-IEPIQSRCAIVRFS----RLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQA  215 (331)
Q Consensus       147 ~~~~~~~l-~~~l~sr~~~i~~~----~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~  215 (331)
                      ++.....+ ...++-+.....+.    +++.+|...++...   .|..++++.+..+.+.++|++--+.-....
T Consensus       158 ~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~---~~~~~~~~~~~~l~~~t~Gwp~~l~l~~~~  228 (903)
T PRK04841        158 LSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQR---LSSPIEAAESSRLCDDVEGWATALQLIALS  228 (903)
T ss_pred             EeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhc---cCCCCCHHHHHHHHHHhCChHHHHHHHHHH
Confidence            87653333 23333334444444    99999999998764   356789999999999999999766544433

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

Probab=98.87  E-value=3.6e-07  Score=76.88  Aligned_cols=139  Identities=19%  Similarity=0.201  Sum_probs=92.5

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCc
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKH  112 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~  112 (331)
                      ....+..++....  .-.++||+|+|||..++.+++.+     +..++.+|+.+..+...+..++.......        
T Consensus        21 ~~~~l~~al~~~~--~~~~~GpagtGKtetik~La~~l-----G~~~~vfnc~~~~~~~~l~ril~G~~~~G--------   85 (231)
T PF12774_consen   21 CFLTLTQALSLNL--GGALSGPAGTGKTETIKDLARAL-----GRFVVVFNCSEQMDYQSLSRILKGLAQSG--------   85 (231)
T ss_dssp             HHHHHHHHHCTTT--EEEEESSTTSSHHHHHHHHHHCT-----T--EEEEETTSSS-HHHHHHHHHHHHHHT--------
T ss_pred             HHHHHHHHhccCC--CCCCcCCCCCCchhHHHHHHHHh-----CCeEEEecccccccHHHHHHHHHHHhhcC--------
Confidence            4445555665433  24789999999999999999999     88999999999888888888888877764        


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHH--------------------hcCCcEEEEeeCC----CCCCChhhhcccceeeec
Q 020071          113 KVVVLDEADSMTAGAQQALRRTMEI--------------------YSNSTRFALACNV----SSKIIEPIQSRCAIVRFS  168 (331)
Q Consensus       113 ~vviide~d~l~~~~~~~Ll~~le~--------------------~~~~~~~I~~~~~----~~~l~~~l~sr~~~i~~~  168 (331)
                      -.+.+||+++++.+....+-..+..                    ..+++.+.++.|.    ...+++.+++-+..+.+.
T Consensus        86 aW~cfdefnrl~~~vLS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~lFRpvam~  165 (231)
T PF12774_consen   86 AWLCFDEFNRLSEEVLSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKALFRPVAMM  165 (231)
T ss_dssp             -EEEEETCCCSSHHHHHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCTTEEEEE--
T ss_pred             chhhhhhhhhhhHHHHHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHHHhheeEEe
Confidence            3899999999998765555443331                    1134445555553    368999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCC
Q 020071          169 RLSDEEILSRLMVVVQEEKVP  189 (331)
Q Consensus       169 ~~~~~~~~~~l~~~~~~~~~~  189 (331)
                      .||...+.+.+   +-..|+.
T Consensus       166 ~PD~~~I~ei~---L~s~GF~  183 (231)
T PF12774_consen  166 VPDLSLIAEIL---LLSQGFK  183 (231)
T ss_dssp             S--HHHHHHHH---HHCCCTS
T ss_pred             CCCHHHHHHHH---HHHcCch
Confidence            99866665554   3355654

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

Probab=98.87  E-value=2.4e-07  Score=86.16  Aligned_cols=175  Identities=16%  Similarity=0.201  Sum_probs=116.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccC----------CCCCCceEEEEe
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVT----------LPPGKHKVVVLD  118 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~----------~~~~~~~vviid  118 (331)
                      +++.|++|+||..+++++.+...   ...+|+.+||... ....+.+.+-.+....++          +.....+.+|+|
T Consensus       339 vll~GEtGtGKe~laraiH~~s~---~~gpfvAvNCaAi-p~~liesELFGy~~GafTga~~kG~~g~~~~A~gGtlFld  414 (606)
T COG3284         339 VLLQGETGTGKEVLARAIHQNSE---AAGPFVAVNCAAI-PEALIESELFGYVAGAFTGARRKGYKGKLEQADGGTLFLD  414 (606)
T ss_pred             eEecCCcchhHHHHHHHHHhccc---ccCCeEEEEeccc-hHHhhhHHHhccCccccccchhccccccceecCCCccHHH
Confidence            99999999999999999998763   3567899998765 333344433322222222          113568899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHh----------cCCcEEEEeeCCC-------CCCChhhhccc--ceeeecCCCHH-HHHHH
Q 020071          119 EADSMTAGAQQALRRTMEIY----------SNSTRFALACNVS-------SKIIEPIQSRC--AIVRFSRLSDE-EILSR  178 (331)
Q Consensus       119 e~d~l~~~~~~~Ll~~le~~----------~~~~~~I~~~~~~-------~~l~~~l~sr~--~~i~~~~~~~~-~~~~~  178 (331)
                      |+..|+-..|..|+++|++.          +-++++|.+|+..       .++-..+--|.  .++.++|+.+. +....
T Consensus       415 eIgd~p~~~Qs~LLrVl~e~~v~p~g~~~~~vdirvi~ath~dl~~lv~~g~fredLyyrL~~~~i~lP~lr~R~d~~~~  494 (606)
T COG3284         415 EIGDMPLALQSRLLRVLQEGVVTPLGGTRIKVDIRVIAATHRDLAQLVEQGRFREDLYYRLNAFVITLPPLRERSDRIPL  494 (606)
T ss_pred             HhhhchHHHHHHHHHHHhhCceeccCCcceeEEEEEEeccCcCHHHHHHcCCchHHHHHHhcCeeeccCchhcccccHHH
Confidence            99999999999999999962          2345677666542       23334444443  45677777652 22222


Q ss_pred             HHHHHHh---cCCCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hCCCccchhh
Q 020071          179 LMVVVQE---EKVPYVPEGLEAIIFTA-DGDMRQALNNLQATY--SGFRFVNQEN  227 (331)
Q Consensus       179 l~~~~~~---~~~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~~~~i~~~~  227 (331)
                      |.++..+   ..+.+++++...|..+. .||+|++.+.++.++  ..++.|...+
T Consensus       495 l~~~~~~~~~~~~~l~~~~~~~l~~~~WPGNirel~~v~~~~~~l~~~g~~~~~d  549 (606)
T COG3284         495 LDRILKRENDWRLQLDDDALARLLAYRWPGNIRELDNVIERLAALSDGGRIRVSD  549 (606)
T ss_pred             HHHHHHHccCCCccCCHHHHHHHHhCCCCCcHHHHHHHHHHHHHcCCCCeeEccc
Confidence            3333332   45789999988877654 899999999999875  3334344333

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

Probab=98.86  E-value=6e-09  Score=93.73  Aligned_cols=114  Identities=25%  Similarity=0.292  Sum_probs=71.7

Q ss_pred             CCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe------ecCCCC------
Q 020071           21 PTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL------NASDDR------   88 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~------~~~~~~------   88 (331)
                      ...|.|++||+.+++.+.-....|.  |++|+||||+|||.+|+.+...+..-... ..+++      .+....      
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAAGgH--nLl~~GpPGtGKTmla~Rl~~lLPpls~~-E~lE~s~I~s~~g~~~~~~~~~~  251 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAAGGH--NLLLVGPPGTGKTMLASRLPGLLPPLSIP-EALEVSAIHSLAGDLHEGCPLKI  251 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHhcCC--cEEEecCCCCchHHhhhhhcccCCCCChH-HHHHHHHHhhhcccccccCccce
Confidence            3489999999999999999988887  69999999999999999998776431100 00000      000000      


Q ss_pred             --------ChHhHHHHHHHHHh-cccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Q 020071           89 --------GIDVVRNKIKMFAQ-KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI  137 (331)
Q Consensus        89 --------~~~~i~~~i~~~~~-~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~  137 (331)
                              .......++..... .+.-..-+.++|+|+||+-.+.....++|..=||+
T Consensus       252 ~rPFr~PHHsaS~~aLvGGG~~p~PGeIsLAH~GVLFLDElpef~~~iLe~LR~PLE~  309 (490)
T COG0606         252 HRPFRAPHHSASLAALVGGGGVPRPGEISLAHNGVLFLDELPEFKRSILEALREPLEN  309 (490)
T ss_pred             eCCccCCCccchHHHHhCCCCCCCCCceeeecCCEEEeeccchhhHHHHHHHhCcccc
Confidence                    00011111111000 00000124688999999999998888888888874

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=98.84  E-value=1.1e-07  Score=88.67  Aligned_cols=143  Identities=20%  Similarity=0.222  Sum_probs=88.3

Q ss_pred             ccccCHHHHHHHHHHHHcC---------CC---CeEEEeCCCCccHHHHHHHHHHHhcCCCC----CCceEEeecCCCCC
Q 020071           26 DIVGNLDAVARLGIIARDG---------NM---PNLILAGPPGTGKTTSILALAHELLGPNY----REAVMELNASDDRG   89 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~---------~~---~~~ll~G~~G~GKt~la~~l~~~l~~~~~----~~~~~~~~~~~~~~   89 (331)
                      .+.|++..++-+.-.+-+|         +.   -|+||+|.||+|||.+.+.+++.+....+    +..-+-+...-...
T Consensus       430 sIye~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVtrd  509 (804)
T KOG0478|consen  430 SIYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVTKD  509 (804)
T ss_pred             hhhcccchhhhHHHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEEec
Confidence            4566777766444333222         11   14899999999999999999998753211    11111111100000


Q ss_pred             hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH-------------hcCCcEEEEeeCCCC----
Q 020071           90 IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI-------------YSNSTRFALACNVSS----  152 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~-------------~~~~~~~I~~~~~~~----  152 (331)
                      . +-++.+.+...    +--++.+++.|||+|+|+......|++.||.             .+..+.++.++|...    
T Consensus       510 ~-dtkqlVLesGA----LVLSD~GiCCIDEFDKM~dStrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLAaANP~~skyn  584 (804)
T KOG0478|consen  510 P-DTRQLVLESGA----LVLSDNGICCIDEFDKMSDSTRSVLHEVMEQQTLSIAKAGIIASLNARCSVLAAANPIRSKYN  584 (804)
T ss_pred             C-ccceeeeecCc----EEEcCCceEEchhhhhhhHHHHHHHHHHHHHhhhhHhhcceeeeccccceeeeeeccccccCC
Confidence            0 11111111111    1135789999999999999999999999994             245677888887521    


Q ss_pred             ---------CCChhhhccccee--eecCCCHH
Q 020071          153 ---------KIIEPIQSRCAIV--RFSRLSDE  173 (331)
Q Consensus       153 ---------~l~~~l~sr~~~i--~~~~~~~~  173 (331)
                               .++++|.|||..+  -+.++++.
T Consensus       585 p~k~i~eNI~LpptLLSRFDLIylllD~~DE~  616 (804)
T KOG0478|consen  585 PNKSIIENINLPPTLLSRFDLIFLLLDKPDER  616 (804)
T ss_pred             CCCchhhccCCChhhhhhhcEEEEEecCcchh
Confidence                     4789999999765  56666654

>PF05729 NACHT: NACHT domain

Probab=98.84  E-value=4.5e-08  Score=78.34  Aligned_cols=136  Identities=17%  Similarity=0.228  Sum_probs=80.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCC---ce-EEeecCCCCCh---HhHHHHHHHHHhccc---------CCCCCCc
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYRE---AV-MELNASDDRGI---DVVRNKIKMFAQKKV---------TLPPGKH  112 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~---~~-~~~~~~~~~~~---~~i~~~i~~~~~~~~---------~~~~~~~  112 (331)
                      ++++|++|+|||++++.++..+.......   .+ +.+........   ..+.+.+........         .....++
T Consensus         3 l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   82 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNKR   82 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCCc
Confidence            69999999999999999999886554322   12 22222221111   122222211111000         0013457


Q ss_pred             eEEEEeCCCCCCHHHH--------HHHHHHHHH-hcCCcEEEEeeCCCCC-CChhhhcccceeeecCCCHHHHHHHHHHH
Q 020071          113 KVVVLDEADSMTAGAQ--------QALRRTMEI-YSNSTRFALACNVSSK-IIEPIQSRCAIVRFSRLSDEEILSRLMVV  182 (331)
Q Consensus       113 ~vviide~d~l~~~~~--------~~Ll~~le~-~~~~~~~I~~~~~~~~-l~~~l~sr~~~i~~~~~~~~~~~~~l~~~  182 (331)
                      -++|||.+|.+.....        ..|..++.. .++++.++++++.... -..........+.+.|++++++.+++++.
T Consensus        83 ~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  162 (166)
T PF05729_consen   83 VLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLRKY  162 (166)
T ss_pred             eEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHHHH
Confidence            7999999999976332        244456655 4567888888764322 02222223367899999999999999886


Q ss_pred             HH
Q 020071          183 VQ  184 (331)
Q Consensus       183 ~~  184 (331)
                      ++
T Consensus       163 f~  164 (166)
T PF05729_consen  163 FS  164 (166)
T ss_pred             hh
Confidence            53

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.82  E-value=1.9e-08  Score=93.44  Aligned_cols=151  Identities=23%  Similarity=0.297  Sum_probs=96.7

Q ss_pred             CCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec------C----------
Q 020071           22 TKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA------S----------   85 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~------~----------   85 (331)
                      ..|.++.|+..+++.+.-.+..|.  +++|.||+|+|||++++.+...+...... ..+++..      .          
T Consensus       188 ~d~~~v~Gq~~~~~al~laa~~G~--~llliG~~GsGKTtLak~L~gllpp~~g~-e~le~~~i~s~~g~~~~~~~~~~r  264 (506)
T PRK09862        188 HDLSDVIGQEQGKRGLEITAAGGH--NLLLIGPPGTGKTMLASRINGLLPDLSNE-EALESAAILSLVNAESVQKQWRQR  264 (506)
T ss_pred             cCeEEEECcHHHHhhhheeccCCc--EEEEECCCCCcHHHHHHHHhccCCCCCCc-EEEecchhhhhhccccccCCcCCC
Confidence            478889999998888766666554  68999999999999999998876422111 1111110      0          


Q ss_pred             CCCCh---HhHHHHHHHH-HhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH-------------hcCCcEEEEee
Q 020071           86 DDRGI---DVVRNKIKMF-AQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI-------------YSNSTRFALAC  148 (331)
Q Consensus        86 ~~~~~---~~i~~~i~~~-~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~-------------~~~~~~~I~~~  148 (331)
                      .....   -....++..- ...+-.+....+.++++||++.++...++.|++.||+             .+.++++|.++
T Consensus       265 Pfr~ph~~~s~~~l~GGg~~~~pG~l~~A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~  344 (506)
T PRK09862        265 PFRSPHHSASLTAMVGGGAIPGPGEISLAHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAM  344 (506)
T ss_pred             CccCCCccchHHHHhCCCceehhhHhhhccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEee
Confidence            00000   0000111000 0001111245688999999999999999999999974             24567888888


Q ss_pred             CCCC---------------------CCChhhhcccce-eeecCCCHHHH
Q 020071          149 NVSS---------------------KIIEPIQSRCAI-VRFSRLSDEEI  175 (331)
Q Consensus       149 ~~~~---------------------~l~~~l~sr~~~-i~~~~~~~~~~  175 (331)
                      |...                     ++..++.+|+.. +.+++++.+++
T Consensus       345 NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLDRfdL~v~v~~~~~~~l  393 (506)
T PRK09862        345 NPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPLPPPGIL  393 (506)
T ss_pred             cCccceecCCCCCCcCHHHHHHHHhhCCHhHHhhccEEEEeCCCCHHHH
Confidence            7632                     466788899866 57887776643

>PRK06526 transposase; Provisional

Probab=98.82  E-value=1.2e-08  Score=87.25  Aligned_cols=97  Identities=18%  Similarity=0.277  Sum_probs=59.0

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc-cc---CCCCCCceEEEEeCCCC
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK-KV---TLPPGKHKVVVLDEADS  122 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~-~~---~~~~~~~~vviide~d~  122 (331)
                      .+++|+||+|+|||+++.+++..+...+....+  ++..      .+-+.+...... ..   -....+..++||||++.
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f--~t~~------~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g~  170 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLF--ATAA------QWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVGY  170 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCCCchhh--hhHH------HHHHHHHHHHhcCcHHHHHHHhccCCEEEEccccc
Confidence            369999999999999999999887544332222  2111      111111100000 00   00013457999999997


Q ss_pred             CC--HHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          123 MT--AGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       123 l~--~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      ..  ...++.|..+++....+..+|+++|.+
T Consensus       171 ~~~~~~~~~~L~~li~~r~~~~s~IitSn~~  201 (254)
T PRK06526        171 IPFEPEAANLFFQLVSSRYERASLIVTSNKP  201 (254)
T ss_pred             CCCCHHHHHHHHHHHHHHHhcCCEEEEcCCC
Confidence            74  666778888887644445688888864

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.81  E-value=3.5e-08  Score=83.55  Aligned_cols=127  Identities=16%  Similarity=0.238  Sum_probs=77.8

Q ss_pred             hhhcCCCCCCcccc----CHHHHHHHHHHHHcCC--CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC
Q 020071           16 VEKYRPTKVCDIVG----NLDAVARLGIIARDGN--MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG   89 (331)
Q Consensus        16 ~~~~~p~~~~~~ig----~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (331)
                      .+.|++.+|+++..    +..++..+.+++.+..  ..+++|+|++|+|||+++.+++..+...+  ..++.++..+.. 
T Consensus        63 ~~~~~~~tFdnf~~~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g--~~v~~it~~~l~-  139 (244)
T PRK07952         63 RPLHQNCSFENYRVECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRG--KSVLIITVADIM-  139 (244)
T ss_pred             CccccCCccccccCCCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEEHHHHH-
Confidence            45677889998762    3445666666665422  23589999999999999999999986543  334444332210 


Q ss_pred             hHhHHHHH-------HHHHhcccCCCCCCceEEEEeCCCCCC--HHHHHHHHHHHHHh-cCCcEEEEeeCCC
Q 020071           90 IDVVRNKI-------KMFAQKKVTLPPGKHKVVVLDEADSMT--AGAQQALRRTMEIY-SNSTRFALACNVS  151 (331)
Q Consensus        90 ~~~i~~~i-------~~~~~~~~~~~~~~~~vviide~d~l~--~~~~~~Ll~~le~~-~~~~~~I~~~~~~  151 (331)
                       ..+....       ......     .....++||||++...  .-....|..+++.. ......|++||..
T Consensus       140 -~~l~~~~~~~~~~~~~~l~~-----l~~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl~  205 (244)
T PRK07952        140 -SAMKDTFSNSETSEEQLLND-----LSNVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNSN  205 (244)
T ss_pred             -HHHHHHHhhccccHHHHHHH-----hccCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCCC
Confidence             1111100       000000     1246799999997764  33455677788753 3467788888864

>PRK04132 replication factor C small subunit; Provisional

Probab=98.81  E-value=3.1e-09  Score=103.74  Aligned_cols=51  Identities=51%  Similarity=0.972  Sum_probs=48.4

Q ss_pred             CCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHH
Q 020071           11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTT   61 (331)
Q Consensus        11 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~   61 (331)
                      ++.||.+||||++|+|++||+++++.|+.+++.+..||++|+||||+||..
T Consensus         5 ~~~~~~~k~RP~~f~dIiGqe~i~~~Lk~~i~~~~i~h~l~~g~~g~~~cl   55 (846)
T PRK04132          5 LEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKCL   55 (846)
T ss_pred             hcccHHHhhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEECCCCCCccc
Confidence            567999999999999999999999999999999999999999999999963

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.78  E-value=1.9e-07  Score=72.21  Aligned_cols=95  Identities=29%  Similarity=0.334  Sum_probs=59.6

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC--------------------hHhHHHHHHHHHhcccC
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG--------------------IDVVRNKIKMFAQKKVT  106 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--------------------~~~i~~~i~~~~~~~~~  106 (331)
                      .+++|+||+|+|||++++.++..+....  ..++.+++.....                    ....+.....+.     
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----   75 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALAR-----   75 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHH-----
Confidence            3589999999999999999999986543  2355554432211                    112222222111     


Q ss_pred             CCCCCceEEEEeCCCCCCHHHHHHHHH--------HHHHhcCCcEEEEeeCC
Q 020071          107 LPPGKHKVVVLDEADSMTAGAQQALRR--------TMEIYSNSTRFALACNV  150 (331)
Q Consensus       107 ~~~~~~~vviide~d~l~~~~~~~Ll~--------~le~~~~~~~~I~~~~~  150 (331)
                        .....+++|||++.+..........        ..........+|+++|.
T Consensus        76 --~~~~~viiiDei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  125 (148)
T smart00382       76 --KLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTND  125 (148)
T ss_pred             --hcCCCEEEEECCcccCCHHHHHHHHhhhhhHHHHHHHhcCCCEEEEEeCC
Confidence              1125899999999998766555433        33345567778888875

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.

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

Probab=98.77  E-value=4.3e-08  Score=84.76  Aligned_cols=145  Identities=23%  Similarity=0.314  Sum_probs=86.5

Q ss_pred             HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc----ccCCCCCC
Q 020071           36 RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK----KVTLPPGK  111 (331)
Q Consensus        36 ~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~----~~~~~~~~  111 (331)
                      .+..++..+.  ++||+||+|+|||.+++.+.+.+....  .....++.+.......+.+.++...+.    .+..+.++
T Consensus        25 ll~~l~~~~~--pvLl~G~~GtGKT~li~~~l~~l~~~~--~~~~~~~~s~~Tts~~~q~~ie~~l~k~~~~~~gP~~~k  100 (272)
T PF12775_consen   25 LLDLLLSNGR--PVLLVGPSGTGKTSLIQNFLSSLDSDK--YLVITINFSAQTTSNQLQKIIESKLEKRRGRVYGPPGGK  100 (272)
T ss_dssp             HHHHHHHCTE--EEEEESSTTSSHHHHHHHHHHCSTTCC--EEEEEEES-TTHHHHHHHHCCCTTECECTTEEEEEESSS
T ss_pred             HHHHHHHcCC--cEEEECCCCCchhHHHHhhhccCCccc--cceeEeeccCCCCHHHHHHHHhhcEEcCCCCCCCCCCCc
Confidence            3455555554  599999999999999999888764321  123345554432333333333222211    11223456


Q ss_pred             ceEEEEeCCCCCCH------HHHHHHHHHHHHhc------------CCcEEEEeeCCC---CCCChhhhcccceeeecCC
Q 020071          112 HKVVVLDEADSMTA------GAQQALRRTMEIYS------------NSTRFALACNVS---SKIIEPIQSRCAIVRFSRL  170 (331)
Q Consensus       112 ~~vviide~d~l~~------~~~~~Ll~~le~~~------------~~~~~I~~~~~~---~~l~~~l~sr~~~i~~~~~  170 (331)
                      +-|++|||++.-..      ...+-|+.+++...            .++.+|.+++..   ..+.+.+.+.+.++.+.+|
T Consensus       101 ~lv~fiDDlN~p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r~f~i~~~~~p  180 (272)
T PF12775_consen  101 KLVLFIDDLNMPQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLRHFNILNIPYP  180 (272)
T ss_dssp             EEEEEEETTT-S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHTTEEEEE----
T ss_pred             EEEEEecccCCCCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhhheEEEEecCC
Confidence            77999999866543      23566667776311            356677777653   2467888888999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 020071          171 SDEEILSRLMVVVQ  184 (331)
Q Consensus       171 ~~~~~~~~l~~~~~  184 (331)
                      +.+.+..+...+..
T Consensus       181 ~~~sl~~If~~il~  194 (272)
T PF12775_consen  181 SDESLNTIFSSILQ  194 (272)
T ss_dssp             TCCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHh
Confidence            99999888877654

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

Probab=98.77  E-value=2.7e-08  Score=90.02  Aligned_cols=156  Identities=18%  Similarity=0.182  Sum_probs=98.4

Q ss_pred             CCCCe---EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC------CChHhHHHHHHHHHhcccC-CCCCCce
Q 020071           44 GNMPN---LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD------RGIDVVRNKIKMFAQKKVT-LPPGKHK  113 (331)
Q Consensus        44 ~~~~~---~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~------~~~~~i~~~i~~~~~~~~~-~~~~~~~  113 (331)
                      -..+|   +|||||||||||.+|+.+.+-++...+.    -+|++..      .+.+.++.+...+.+.--. -..++-.
T Consensus       251 lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePK----IVNGPeIL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLH  326 (744)
T KOG0741|consen  251 LGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPK----IVNGPEILNKYVGESEENVRKLFADAEEEQRRLGANSGLH  326 (744)
T ss_pred             cCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCc----ccCcHHHHHHhhcccHHHHHHHHHhHHHHHHhhCccCCce
Confidence            34556   7999999999999999999999764332    1233321      2345667666554432111 1145568


Q ss_pred             EEEEeCCCCCC-------------HHHHHHHHHHHHH--hcCCcEEEEeeCCCCCCChhhhc--ccce-eeecCCCHHHH
Q 020071          114 VVVLDEADSMT-------------AGAQQALRRTMEI--YSNSTRFALACNVSSKIIEPIQS--RCAI-VRFSRLSDEEI  175 (331)
Q Consensus       114 vviide~d~l~-------------~~~~~~Ll~~le~--~~~~~~~I~~~~~~~~l~~~l~s--r~~~-i~~~~~~~~~~  175 (331)
                      +||+||+|.+.             ....|.|+.-|+.  .-.+..+|..||....+..++.+  |+.+ +++.-|++.-.
T Consensus       327 IIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeqLNNILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gR  406 (744)
T KOG0741|consen  327 IIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGR  406 (744)
T ss_pred             EEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHhhhcEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCc
Confidence            99999998663             3457888888773  33577788889988888888877  3433 46777777655


Q ss_pred             HHHHH---HHHHhcCCCCCHHHHHHHHHhcC
Q 020071          176 LSRLM---VVVQEEKVPYVPEGLEAIIFTAD  203 (331)
Q Consensus       176 ~~~l~---~~~~~~~~~i~~~~~~~l~~~~~  203 (331)
                      .++++   ++.+..+.--++-.++.|+.++.
T Consensus       407 lQIl~IHT~rMre~~~l~~dVdl~elA~lTK  437 (744)
T KOG0741|consen  407 LQILKIHTKRMRENNKLSADVDLKELAALTK  437 (744)
T ss_pred             eEEEEhhhhhhhhcCCCCCCcCHHHHHHHhc
Confidence            55443   33333343223334666776653

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=98.76  E-value=7.4e-08  Score=89.00  Aligned_cols=135  Identities=24%  Similarity=0.274  Sum_probs=82.5

Q ss_pred             CCccccCHHHHHHHHHHHHcC------------CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec--CCCCC
Q 020071           24 VCDIVGNLDAVARLGIIARDG------------NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA--SDDRG   89 (331)
Q Consensus        24 ~~~~ig~~~~~~~l~~~l~~~------------~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~--~~~~~   89 (331)
                      |..+.||+.++.-+.-.+-+|            .-.|+++.|.||+||+.+.++.+.-+..      -++..+  +...|
T Consensus       344 ~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR------~vYtsGkaSSaAG  417 (764)
T KOG0480|consen  344 FPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPR------SVYTSGKASSAAG  417 (764)
T ss_pred             CccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCc------ceEecCccccccc
Confidence            446778888887554444332            1136999999999999999998876532      122211  11111


Q ss_pred             hH--hHHHH-HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeCCCC-
Q 020071           90 ID--VVRNK-IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACNVSS-  152 (331)
Q Consensus        90 ~~--~i~~~-i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~~~~-  152 (331)
                      ..  ..++. -.++.-.+-.+.-++.+++.|||+|+|....+.++++.||..             +..+.+|.++|+.. 
T Consensus       418 LTaaVvkD~esgdf~iEAGALmLADnGICCIDEFDKMd~~dqvAihEAMEQQtISIaKAGv~aTLnARtSIlAAANPv~G  497 (764)
T KOG0480|consen  418 LTAAVVKDEESGDFTIEAGALMLADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIAKAGVVATLNARTSILAAANPVGG  497 (764)
T ss_pred             ceEEEEecCCCCceeeecCcEEEccCceEEechhcccChHhHHHHHHHHHhheehheecceEEeecchhhhhhhcCCcCC
Confidence            00  00000 000111111112467899999999999999999999999953             34556777777632 


Q ss_pred             ------------CCChhhhcccce
Q 020071          153 ------------KIIEPIQSRCAI  164 (331)
Q Consensus       153 ------------~l~~~l~sr~~~  164 (331)
                                  ++.++|.||+..
T Consensus       498 hYdR~ktl~eNi~msApimSRFDL  521 (764)
T KOG0480|consen  498 HYDRKKTLRENINMSAPIMSRFDL  521 (764)
T ss_pred             ccccccchhhhcCCCchhhhhhcE
Confidence                        456888899754

>PLN03210 Resistant to P

Probab=98.74  E-value=6.7e-07  Score=92.74  Aligned_cols=185  Identities=16%  Similarity=0.125  Sum_probs=108.8

Q ss_pred             CCCCCccccCHHHHHHHHHHHHcCC--CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe---ecCC---------
Q 020071           21 PTKVCDIVGNLDAVARLGIIARDGN--MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL---NASD---------   86 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~---~~~~---------   86 (331)
                      +..+++++|.+..++.+..++.-+.  ...+-++|++|+||||+|++++..+........++.-   ....         
T Consensus       180 ~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~  259 (1153)
T PLN03210        180 SNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPD  259 (1153)
T ss_pred             CcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhccccccc
Confidence            3468899999999999988875432  2227999999999999999998887543222111110   0000         


Q ss_pred             CCC--hHhHHHHHHHHHh-------------cccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           87 DRG--IDVVRNKIKMFAQ-------------KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        87 ~~~--~~~i~~~i~~~~~-------------~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      ...  .....+.+.....             ..+   .+++-++|+||++..  ...+.|....+....+.++|+||.+.
T Consensus       260 ~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L---~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIiTTrd~  334 (1153)
T PLN03210        260 DYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERL---KHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIVITKDK  334 (1153)
T ss_pred             ccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHH---hCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEEEeCcH
Confidence            000  0000111111111             011   345678999998653  34455554444334567788888754


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCC--HHHHHHHHHhcCCCHHHHHHH
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV--PEGLEAIIFTADGDMRQALNN  212 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~--~~~~~~l~~~~~g~~r~~~~~  212 (331)
                      .-+.. . .-..++.+..++.++..+++.+.+.+....-+  .+....++++++|-|-.+.-.
T Consensus       335 ~vl~~-~-~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vl  395 (1153)
T PLN03210        335 HFLRA-H-GIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVL  395 (1153)
T ss_pred             HHHHh-c-CCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            32211 0 01256888999999999999887755432211  234677889999887654433

syringae 6; Provisional

>PF14516 AAA_35: AAA-like domain

Probab=98.73  E-value=1e-05  Score=72.37  Aligned_cols=230  Identities=15%  Similarity=0.138  Sum_probs=130.1

Q ss_pred             cccCHHHHHHHHHHHHc-CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC---CChHhHHHHH-----
Q 020071           27 IVGNLDAVARLGIIARD-GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD---RGIDVVRNKI-----   97 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~-~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---~~~~~i~~~i-----   97 (331)
                      .+.++.+-+.+.+.+.+ |.  .+.+.||..+|||++...+.+.+..+++...++.+...+.   ...+.+-..+     
T Consensus        13 Yi~R~~~e~~~~~~i~~~G~--~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~   90 (331)
T PF14516_consen   13 YIERPPAEQECYQEIVQPGS--YIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEIS   90 (331)
T ss_pred             ccCchHHHHHHHHHHhcCCC--EEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHH
Confidence            45666677777777766 55  4799999999999999999998876644333333332111   1111100000     


Q ss_pred             ---------HH--------------HHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHH----HHh-----cCCcE
Q 020071           98 ---------KM--------------FAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTM----EIY-----SNSTR  143 (331)
Q Consensus        98 ---------~~--------------~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~l----e~~-----~~~~~  143 (331)
                               ..              +.+.-.-....++-|++|||+|.+..  .....++..+    +..     ....+
T Consensus        91 ~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L~  170 (331)
T PF14516_consen   91 RQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKLR  170 (331)
T ss_pred             HHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceEE
Confidence                     00              00000000024578999999998864  2233344333    321     23455


Q ss_pred             EEEeeCCCCCCChhh----hcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhC
Q 020071          144 FALACNVSSKIIEPI----QSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSG  219 (331)
Q Consensus       144 ~I~~~~~~~~l~~~l----~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~  219 (331)
                      +|++......+....    -+-+..+.+++.+.+|+...+++    .+..+++..++.|...++|.|.-+...+..+...
T Consensus       171 li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~----~~~~~~~~~~~~l~~~tgGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  171 LILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQR----YGLEFSQEQLEQLMDWTGGHPYLVQKACYLLVEE  246 (331)
T ss_pred             EEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHh----hhccCCHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            666543222121111    13466789999999999887655    4667888889999999999998877777776543


Q ss_pred             CCccchhhhhhhc---CCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Q 020071          220 FRFVNQENVFKVC---DQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLG  266 (331)
Q Consensus       220 ~~~i~~~~v~~~~---~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g  266 (331)
                        .++.+.+.+..   .....+++..+++.+.  +..+....+..++..+
T Consensus       247 --~~~~~~l~~~a~~~~~~~~~hL~~l~~~L~--~~~~L~~~~~~il~~~  292 (331)
T PF14516_consen  247 --QITLEQLLEEAITDNGIYNDHLDRLLDRLQ--QNPELLEAYQQILFSG  292 (331)
T ss_pred             --cCcHHHHHHHHHHhcccHHHHHHHHHHHHc--cCHHHHHHHHHHHhCC
Confidence              34444332211   1122234445555441  2225555665665544

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=98.73  E-value=3.7e-08  Score=90.61  Aligned_cols=230  Identities=19%  Similarity=0.197  Sum_probs=126.4

Q ss_pred             ccccCHHHHHHHHHHHHcCCC------------CeEEEeCCCCccHHHHHHHHHHHhcCC----CCCCceEEeecCCCCC
Q 020071           26 DIVGNLDAVARLGIIARDGNM------------PNLILAGPPGTGKTTSILALAHELLGP----NYREAVMELNASDDRG   89 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~~~------------~~~ll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~~~~   89 (331)
                      .+.||..++..+.-.+-+|..            -|+||+|.||+||+.+.+..++.....    +.+...+-+.+.-.. 
T Consensus       450 sIyGh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~K-  528 (854)
T KOG0477|consen  450 SIYGHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRK-  528 (854)
T ss_pred             hhhchHHHHHHHHHHHhcCCccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEee-
Confidence            467899988887777655321            158999999999999999988865321    111111111111000 


Q ss_pred             hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeCCC-----
Q 020071           90 IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACNVS-----  151 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~~~-----  151 (331)
                       +.   .-.+|.-....+--++++|++|||+|+|+......+.+.||..             ...|.+|.++|..     
T Consensus       529 -dP---vtrEWTLEaGALVLADkGvClIDEFDKMndqDRtSIHEAMEQQSISISKAGIVtsLqArctvIAAanPigGRY~  604 (854)
T KOG0477|consen  529 -DP---VTREWTLEAGALVLADKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISKAGIVTSLQARCTVIAAANPIGGRYN  604 (854)
T ss_pred             -CC---ccceeeeccCeEEEccCceEEeehhhhhcccccchHHHHHHhcchhhhhhhHHHHHHhhhhhheecCCCCCccC
Confidence             00   0011111111111457899999999999987777777777642             3567788888762     


Q ss_pred             ------C--CCChhhhccccee-----eecCCCHHHHHHHHHH-HHHhc-------CC----------CCCHHHHHHHHH
Q 020071          152 ------S--KIIEPIQSRCAIV-----RFSRLSDEEILSRLMV-VVQEE-------KV----------PYVPEGLEAIIF  200 (331)
Q Consensus       152 ------~--~l~~~l~sr~~~i-----~~~~~~~~~~~~~l~~-~~~~~-------~~----------~i~~~~~~~l~~  200 (331)
                            +  .+..++.||+.++     .+.|..++.+.+++-. ..+.+       ++          .++.+++...+.
T Consensus       605 ~s~tFaqNV~ltePIlSRFDiLcVvkD~vd~~~De~lA~fVV~Sh~r~hp~~~~~~~~~e~~~~~~v~~ipq~lLrkyI~  684 (854)
T KOG0477|consen  605 PSLTFAQNVDLTEPILSRFDILCVVKDTVDPVQDEKLAKFVVGSHVRHHPSNKEEDGLEEPQMPARVEPIPQELLRKYII  684 (854)
T ss_pred             CccchhhccccccchhhhcceeeeeecccCchhHHHHHHHHHHhHhhcCCcccccCcccccccccccccChHHHHHHHHH
Confidence                  1  5678899997664     5666666666666533 22211       11          144455444333


Q ss_pred             h---------cCCCHHHHHHHHHH-----HhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHH
Q 020071          201 T---------ADGDMRQALNNLQA-----TYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLK  260 (331)
Q Consensus       201 ~---------~~g~~r~~~~~l~~-----~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~  260 (331)
                      +         ..+|..+.-+..-.     .+.++-.||..++..++.....-.-..+-+.+...|...|+..+.
T Consensus       685 yar~~v~PkL~q~d~~K~s~vya~lRkES~~tGs~piTvRHieS~ir~seAhArm~Lr~~V~~~d~~~AI~v~l  758 (854)
T KOG0477|consen  685 YAREKVRPKLNQMDMDKISSVYADLRKESMATGSLPITVRHIESMIRMSEAHARMHLREYVTEEDVDMAIRVML  758 (854)
T ss_pred             HHHHhcccccccccHHHHHHHHHHHHhhccccCCchhhHHHHHHHHHHHHHHHHHHHHhhccHhHHHHHHHHHH
Confidence            3         23444443333322     235556788888877654332222222333333445555555443

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

Probab=98.72  E-value=2.8e-08  Score=80.39  Aligned_cols=93  Identities=28%  Similarity=0.389  Sum_probs=57.5

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-------CChHhHHHHHHHHHhcccCCCCCCceEEEEeC
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDE  119 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide  119 (331)
                      .+++|+||+|+|||++|.++++.+...+..  +..++..+.       .......+.++.+.         +..++||||
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~~--v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~---------~~dlLilDD  116 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEAIRKGYS--VLFITASDLLDELKQSRSDGSYEELLKRLK---------RVDLLILDD  116 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH---------TSSCEEEET
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHhccCCcc--eeEeecCceeccccccccccchhhhcCccc---------cccEecccc
Confidence            359999999999999999999987654433  333332211       00011222233222         356999999


Q ss_pred             CCCC--CHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          120 ADSM--TAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       120 ~d~l--~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      +...  +....+.|.++++....+...|++||.
T Consensus       117 lG~~~~~~~~~~~l~~ii~~R~~~~~tIiTSN~  149 (178)
T PF01695_consen  117 LGYEPLSEWEAELLFEIIDERYERKPTIITSNL  149 (178)
T ss_dssp             CTSS---HHHHHCTHHHHHHHHHT-EEEEEESS
T ss_pred             cceeeecccccccchhhhhHhhcccCeEeeCCC
Confidence            8765  455677788888765445578888885

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>PRK06921 hypothetical protein; Provisional

Probab=98.71  E-value=1.2e-07  Score=81.68  Aligned_cols=101  Identities=18%  Similarity=0.263  Sum_probs=59.9

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCC---
Q 020071           46 MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADS---  122 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~---  122 (331)
                      ..+++|+|++|+|||+++.++++.+.... +..++.+...+.  ...+...........-  ......++||||++.   
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~-g~~v~y~~~~~l--~~~l~~~~~~~~~~~~--~~~~~dlLiIDDl~~~~~  191 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKK-GVPVLYFPFVEG--FGDLKDDFDLLEAKLN--RMKKVEVLFIDDLFKPVN  191 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhc-CceEEEEEHHHH--HHHHHHHHHHHHHHHH--HhcCCCEEEEeccccccC
Confidence            34599999999999999999999986431 233444443221  1122221111111000  023467999999944   


Q ss_pred             ----CCHHHHHHHHHHHHHhc-CCcEEEEeeCCC
Q 020071          123 ----MTAGAQQALRRTMEIYS-NSTRFALACNVS  151 (331)
Q Consensus       123 ----l~~~~~~~Ll~~le~~~-~~~~~I~~~~~~  151 (331)
                          .+.-..+.|..+++... ....+|+++|..
T Consensus       192 g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~~  225 (266)
T PRK06921        192 GKPRATEWQIEQMYSVLNYRYLNHKPILISSELT  225 (266)
T ss_pred             CCccCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence                44555677888887543 345678888763

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

Probab=98.71  E-value=5.3e-07  Score=77.64  Aligned_cols=106  Identities=22%  Similarity=0.297  Sum_probs=72.7

Q ss_pred             CceEEEEeCCCCCCH------------HHHHHHHHHHHHhc----------CCcEEEEee----CCCCCCChhhhcccce
Q 020071          111 KHKVVVLDEADSMTA------------GAQQALRRTMEIYS----------NSTRFALAC----NVSSKIIEPIQSRCAI  164 (331)
Q Consensus       111 ~~~vviide~d~l~~------------~~~~~Ll~~le~~~----------~~~~~I~~~----~~~~~l~~~l~sr~~~  164 (331)
                      ..++|||||+|++..            ..|--|+.++|...          .+..||.+.    ..++.+.|.|.-|+.+
T Consensus       250 ~~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQGRfPI  329 (444)
T COG1220         250 QNGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQGRFPI  329 (444)
T ss_pred             hcCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcCCCce
Confidence            367999999998732            34667888887422          222333332    3478999999999865


Q ss_pred             -eeecCCCHHHHHHHHHH-----------HHHhcC--CCCCHHHHHHHHHhcC--------CCHHHHHHHHHHH
Q 020071          165 -VRFSRLSDEEILSRLMV-----------VVQEEK--VPYVPEGLEAIIFTAD--------GDMRQALNNLQAT  216 (331)
Q Consensus       165 -i~~~~~~~~~~~~~l~~-----------~~~~~~--~~i~~~~~~~l~~~~~--------g~~r~~~~~l~~~  216 (331)
                       +++.+++.+++.++|..           ..+-+|  +.+++++++.|++.+-        =-.|++...++++
T Consensus       330 RVEL~~Lt~~Df~rILtep~~sLikQY~aLlkTE~v~l~FtddaI~~iAeiA~~vN~~~ENIGARRLhTvlErl  403 (444)
T COG1220         330 RVELDALTKEDFERILTEPKASLIKQYKALLKTEGVELEFTDDAIKRIAEIAYQVNEKTENIGARRLHTVLERL  403 (444)
T ss_pred             EEEcccCCHHHHHHHHcCcchHHHHHHHHHHhhcCeeEEecHHHHHHHHHHHHHhcccccchhHHHHHHHHHHH
Confidence             79999999999888743           122344  4568999999987641        2356677777655

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

Probab=98.71  E-value=6.3e-08  Score=92.15  Aligned_cols=134  Identities=23%  Similarity=0.294  Sum_probs=86.3

Q ss_pred             ccccCHHHHHHHHHHHHcCCC------------CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec--CCCCChH
Q 020071           26 DIVGNLDAVARLGIIARDGNM------------PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA--SDDRGID   91 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~~~------------~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~--~~~~~~~   91 (331)
                      .+.|++.+++.+.-++-+|..            -|+|+.|.||+|||.+.+.+.+....     . +..++  +...|..
T Consensus       287 sIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr-----~-vytsgkgss~~GLT  360 (682)
T COG1241         287 SIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPR-----G-VYTSGKGSSAAGLT  360 (682)
T ss_pred             cccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCc-----e-EEEccccccccCce
Confidence            677999988876655543210            26899999999999999999987732     1 11221  1111100


Q ss_pred             --hHHHHH-HHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeCCCC---
Q 020071           92 --VVRNKI-KMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACNVSS---  152 (331)
Q Consensus        92 --~i~~~i-~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~~~~---  152 (331)
                        ..++.. .+|.-.+..+-.++++|+.|||+|+|+.....++...||..             +..|.+++++|...   
T Consensus       361 Aav~rd~~tge~~LeaGALVlAD~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvLAAaNP~~Gry  440 (682)
T COG1241         361 AAVVRDKVTGEWVLEAGALVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISIAKAGITATLNARCSVLAAANPKFGRY  440 (682)
T ss_pred             eEEEEccCCCeEEEeCCEEEEecCCEEEEEeccCCChHHHHHHHHHHHhcEeeecccceeeecchhhhhhhhhCCCCCcC
Confidence              011111 01111111122457899999999999999999999999953             34556777777642   


Q ss_pred             ----------CCChhhhccccee
Q 020071          153 ----------KIIEPIQSRCAIV  165 (331)
Q Consensus       153 ----------~l~~~l~sr~~~i  165 (331)
                                .+++++.||+..+
T Consensus       441 d~~~~~~enI~l~~~lLSRFDLi  463 (682)
T COG1241         441 DPKKTVAENINLPAPLLSRFDLI  463 (682)
T ss_pred             CCCCCHHHhcCCChhHHhhCCee
Confidence                      4779999998765

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.68  E-value=1.9e-07  Score=82.70  Aligned_cols=129  Identities=21%  Similarity=0.261  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH-H---HHH--hcc
Q 020071           33 AVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI-K---MFA--QKK  104 (331)
Q Consensus        33 ~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i-~---~~~--~~~  104 (331)
                      ++.....++.+.  ...+++|+||+|+|||+++.++++.+...+  ..++.++..+.  .+.+.... .   ...  ...
T Consensus       168 ~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g--~~V~y~t~~~l--~~~l~~~~~~~~~~~~~~~~~  243 (329)
T PRK06835        168 ILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRTADEL--IEILREIRFNNDKELEEVYDL  243 (329)
T ss_pred             HHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHCC--CeEEEEEHHHH--HHHHHHHHhccchhHHHHHHH
Confidence            344445555531  124599999999999999999999987553  34444443321  11111100 0   000  000


Q ss_pred             cCCCCCCceEEEEeCCCCC--CHHHHHHHHHHHHHhc-CCcEEEEeeCCCC-----CCChhhhcc----cceeeecC
Q 020071          105 VTLPPGKHKVVVLDEADSM--TAGAQQALRRTMEIYS-NSTRFALACNVSS-----KIIEPIQSR----CAIVRFSR  169 (331)
Q Consensus       105 ~~~~~~~~~vviide~d~l--~~~~~~~Ll~~le~~~-~~~~~I~~~~~~~-----~l~~~l~sr----~~~i~~~~  169 (331)
                          -.+..++||||++..  +...++.|..+++... ....+|++||...     .+.+.+.||    +.++.|..
T Consensus       244 ----l~~~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl~~~el~~~~~eri~SRL~~~~~~i~~~G  316 (329)
T PRK06835        244 ----LINCDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNLSLEELLKTYSERISSRLLGNFTLLKFYG  316 (329)
T ss_pred             ----hccCCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHhHHHHHHHHcCCEEEEecC
Confidence                124579999999544  5667788999988653 3466888887642     233455555    34455543

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.68  E-value=9.7e-07  Score=83.93  Aligned_cols=200  Identities=17%  Similarity=0.150  Sum_probs=125.3

Q ss_pred             CHHHHHHHHHHHHcC-CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC----CChHhHHHHHHHHHh--
Q 020071           30 NLDAVARLGIIARDG-NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD----RGIDVVRNKIKMFAQ--  102 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~-~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~----~~~~~i~~~i~~~~~--  102 (331)
                      +++++..|.-..-+. .+..+++.|+.|++|+++++.+...+..   ..+|+.+..+..    .|.-++...+..-..  
T Consensus         8 ~~~~~~Al~l~av~p~~~gGv~i~g~~G~~ks~~~r~l~~llp~---~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~   84 (584)
T PRK13406          8 WADAALAAALLAVDPAGLGGVVLRARAGPVRDRWLAALRALLPA---GTPLRRLPPGIADDRLLGGLDLAATLRAGRPVA   84 (584)
T ss_pred             HHHHHHHHHHhCcCccccceEEEEcCCCcHHHHHHHHHHHhcCC---CCCcccCCCCCcHHHccCCchHHhHhhcCCcCC
Confidence            444555444443344 5566999999999999999999998743   235554433221    222233333322111  


Q ss_pred             cccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeCC---CCCCChhhhcccce-e
Q 020071          103 KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACNV---SSKIIEPIQSRCAI-V  165 (331)
Q Consensus       103 ~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~~---~~~l~~~l~sr~~~-i  165 (331)
                      .+--+....+.|+||||+..+++..++.|+..|++.             |..+.+|.+.|.   ...+.+.+..|+.. +
T Consensus        85 ~pGlla~Ah~GvL~lDe~n~~~~~~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLDRf~l~v  164 (584)
T PRK13406         85 QRGLLAEADGGVLVLAMAERLEPGTAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALADRLAFHL  164 (584)
T ss_pred             CCCceeeccCCEEEecCcccCCHHHHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHhheEEEE
Confidence            111122456899999999999999999999999953             333444443221   24588999999754 5


Q ss_pred             eecCCCHHHHH-------HHHHHHHHhcCCCCCHHHHHHHHHhc---CC-CHHHHHHHHHHH-----hhCCCccchhhhh
Q 020071          166 RFSRLSDEEIL-------SRLMVVVQEEKVPYVPEGLEAIIFTA---DG-DMRQALNNLQAT-----YSGFRFVNQENVF  229 (331)
Q Consensus       166 ~~~~~~~~~~~-------~~l~~~~~~~~~~i~~~~~~~l~~~~---~g-~~r~~~~~l~~~-----~~~~~~i~~~~v~  229 (331)
                      .+.+++..+..       ++...+..-.++.++++.+++++..+   +- +.|..+..+..+     ..+...|+.++|.
T Consensus       165 ~v~~~~~~~~~~~~~~~~~I~~AR~rl~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~  244 (584)
T PRK13406        165 DLDGLALRDAREIPIDADDIAAARARLPAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLA  244 (584)
T ss_pred             EcCCCChHHhcccCCCHHHHHHHHHHHccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHH
Confidence            77776655432       22222222247889999988877654   32 567666666533     2577789999987


Q ss_pred             hhc
Q 020071          230 KVC  232 (331)
Q Consensus       230 ~~~  232 (331)
                      +++
T Consensus       245 ~Aa  247 (584)
T PRK13406        245 LAA  247 (584)
T ss_pred             HHH
Confidence            754

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

Probab=98.68  E-value=2.2e-08  Score=76.96  Aligned_cols=101  Identities=25%  Similarity=0.326  Sum_probs=60.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCC---CCCceEEeecCCCCChHhHHHHHHHHHhcccCC---------------CC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPN---YREAVMELNASDDRGIDVVRNKIKMFAQKKVTL---------------PP  109 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~---------------~~  109 (331)
                      +++++||+|+|||++++.+++.+....   ...+++.+++........+...+......+...               ..
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~   85 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDR   85 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHh
Confidence            479999999999999999999874210   023445554433222222222221111111100               01


Q ss_pred             CCceEEEEeCCCCC-CHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSM-TAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l-~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+..++||||+|.+ +.+..+.|..+++  ..++.+|+++++
T Consensus        86 ~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   86 RRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             CTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             cCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            22369999999999 8777888877776  566778887764

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

Probab=98.66  E-value=6.3e-07  Score=84.78  Aligned_cols=168  Identities=20%  Similarity=0.235  Sum_probs=107.9

Q ss_pred             cccCHHHHHHHHHHHHcC---------CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC--hHhHHH
Q 020071           27 IVGNLDAVARLGIIARDG---------NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG--IDVVRN   95 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~---------~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~~~i~~   95 (331)
                      .-+++..+..+...+.-.         ..+.+|++|++|+|||++++++++++     +.++++++|.+...  ......
T Consensus       403 ~~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~l-----g~h~~evdc~el~~~s~~~~et  477 (953)
T KOG0736|consen  403 PPGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASEL-----GLHLLEVDCYELVAESASHTET  477 (953)
T ss_pred             CccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHh-----CCceEeccHHHHhhcccchhHH
Confidence            334555555555555432         22348999999999999999999999     88888888754311  111111


Q ss_pred             HHHHHHhcccCCCCCCceEEEEeCCCCCCHH--------HHHHHHHHHH-----HhcCCcEEEEeeCCCCCCChhhhccc
Q 020071           96 KIKMFAQKKVTLPPGKHKVVVLDEADSMTAG--------AQQALRRTME-----IYSNSTRFALACNVSSKIIEPIQSRC  162 (331)
Q Consensus        96 ~i~~~~~~~~~~~~~~~~vviide~d~l~~~--------~~~~Ll~~le-----~~~~~~~~I~~~~~~~~l~~~l~sr~  162 (331)
                      .+..+....-   ....-|+++.++|-+..+        .+..+...+.     ...+.+.||.+++..+.+++.+++-+
T Consensus       478 kl~~~f~~a~---~~~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~~~lp~~i~~~f  554 (953)
T KOG0736|consen  478 KLQAIFSRAR---RCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSIEDLPADIQSLF  554 (953)
T ss_pred             HHHHHHHHHh---hcCceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEeccccccCCHHHHHhh
Confidence            2222222111   345679999988877421        1223333333     12356778888889999999999986


Q ss_pred             -ceeeecCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCC
Q 020071          163 -AIVRFSRLSDEEILSRLMVVVQEEKVPYVPE-GLEAIIFTADG  204 (331)
Q Consensus       163 -~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g  204 (331)
                       ..+.++-+++++..+|++.......  ++++ ....+++.+.|
T Consensus       555 ~~ei~~~~lse~qRl~iLq~y~~~~~--~n~~v~~k~~a~~t~g  596 (953)
T KOG0736|consen  555 LHEIEVPALSEEQRLEILQWYLNHLP--LNQDVNLKQLARKTSG  596 (953)
T ss_pred             hhhccCCCCCHHHHHHHHHHHHhccc--cchHHHHHHHHHhcCC
Confidence             5689999999999999999876554  3332 34455555543

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

Probab=98.65  E-value=3.4e-07  Score=92.52  Aligned_cols=146  Identities=21%  Similarity=0.300  Sum_probs=104.0

Q ss_pred             cCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcc---cCCC-------CCCc
Q 020071           43 DGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKK---VTLP-------PGKH  112 (331)
Q Consensus        43 ~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~---~~~~-------~~~~  112 (331)
                      ....| +|+.||..+|||+++..+++..     +..|+.+|-....   ...+-+..+.+..   .+++       ..++
T Consensus       886 ~~~fP-~LiQGpTSSGKTSMI~yla~~t-----ghkfVRINNHEHT---dlqeYiGTyvTdd~G~lsFkEGvLVeAlR~G  956 (4600)
T COG5271         886 LSNFP-LLIQGPTSSGKTSMILYLARET-----GHKFVRINNHEHT---DLQEYIGTYVTDDDGSLSFKEGVLVEALRRG  956 (4600)
T ss_pred             hcCCc-EEEecCCCCCcchHHHHHHHHh-----CccEEEecCcccc---hHHHHhhceeecCCCceeeehhHHHHHHhcC
Confidence            33444 9999999999999999999998     7778888754431   2223332222211   0011       1245


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHH--------------hcCCcEEEEeeCCC------CCCChhhhcccceeeecCCCH
Q 020071          113 KVVVLDEADSMTAGAQQALRRTMEI--------------YSNSTRFALACNVS------SKIIEPIQSRCAIVRFSRLSD  172 (331)
Q Consensus       113 ~vviide~d~l~~~~~~~Ll~~le~--------------~~~~~~~I~~~~~~------~~l~~~l~sr~~~i~~~~~~~  172 (331)
                      -.||+||....+.+..++|.++++.              |+++.++..+.|.+      .-+..+++.|+..++|.-.++
T Consensus       957 yWIVLDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrAFRNRFlE~hFddipe 1036 (4600)
T COG5271         957 YWIVLDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRAFRNRFLEMHFDDIPE 1036 (4600)
T ss_pred             cEEEeeccccCcHHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHHHHhhhHhhhcccCcH
Confidence            6899999999999999999999983              44555554444543      246689999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHhc
Q 020071          173 EEILSRLMVVVQEEKVPYVPEGLEAIIFTA  202 (331)
Q Consensus       173 ~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~  202 (331)
                      +|+..+|+.+|     .+.+.-+..+++..
T Consensus      1037 dEle~ILh~rc-----~iapSyakKiVeVy 1061 (4600)
T COG5271        1037 DELEEILHGRC-----EIAPSYAKKIVEVY 1061 (4600)
T ss_pred             HHHHHHHhccC-----ccCHHHHHHHHHHH
Confidence            99999998866     57777666666543

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.62  E-value=1.4e-07  Score=82.91  Aligned_cols=122  Identities=18%  Similarity=0.201  Sum_probs=71.6

Q ss_pred             hhcCCCCCCcccc----CHHHHHHHHHHHHcC----CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           17 EKYRPTKVCDIVG----NLDAVARLGIIARDG----NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        17 ~~~~p~~~~~~ig----~~~~~~~l~~~l~~~----~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      ..+...+|+++..    +..+......++.+.    ...+++|+||+|+|||+++.++++.+...+....++  ..++. 
T Consensus       119 ~~~~~atf~~~~~~~~~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~--~~~~l-  195 (306)
T PRK08939        119 KDLLQASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLL--HFPEF-  195 (306)
T ss_pred             HhHhcCcHHHhcCCChHHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEE--EHHHH-
Confidence            3344567777653    333444445555532    234599999999999999999999986544333333  32211 


Q ss_pred             ChHhH---------HHHHHHHHhcccCCCCCCceEEEEeCCCCC--CHHHHHHHHH-HHHHh-cCCcEEEEeeCCC
Q 020071           89 GIDVV---------RNKIKMFAQKKVTLPPGKHKVVVLDEADSM--TAGAQQALRR-TMEIY-SNSTRFALACNVS  151 (331)
Q Consensus        89 ~~~~i---------~~~i~~~~~~~~~~~~~~~~vviide~d~l--~~~~~~~Ll~-~le~~-~~~~~~I~~~~~~  151 (331)
                       ...+         .+.++.         .....++||||+..-  +.-....++. +++.. ......|++||-.
T Consensus       196 -~~~lk~~~~~~~~~~~l~~---------l~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~  261 (306)
T PRK08939        196 -IRELKNSISDGSVKEKIDA---------VKEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNFD  261 (306)
T ss_pred             -HHHHHHHHhcCcHHHHHHH---------hcCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCCC
Confidence             1111         111221         134679999998654  4444434544 55533 4667888888853

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.60  E-value=1.4e-06  Score=67.33  Aligned_cols=124  Identities=16%  Similarity=0.336  Sum_probs=71.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCC-----------------CCceEEeecCCC-----------------CChHhHH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNY-----------------REAVMELNASDD-----------------RGIDVVR   94 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~-----------------~~~~~~~~~~~~-----------------~~~~~i~   94 (331)
                      ++++|+||+||||++..++..+...++                 ++.++.+.....                 -..+...
T Consensus         8 i~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~V~v~~le   87 (179)
T COG1618           8 IFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYGVNVEGLE   87 (179)
T ss_pred             EEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEEeeHHHHH
Confidence            899999999999999999998865432                 122333331110                 0123344


Q ss_pred             HHHHHHHhcccCCCCCCceEEEEeCCCCCC---HHHHHHHHHHHHHhcCCcEEEEeeC--CCCCCChhhhcccceee-ec
Q 020071           95 NKIKMFAQKKVTLPPGKHKVVVLDEADSMT---AGAQQALRRTMEIYSNSTRFALACN--VSSKIIEPIQSRCAIVR-FS  168 (331)
Q Consensus        95 ~~i~~~~~~~~~~~~~~~~vviide~d~l~---~~~~~~Ll~~le~~~~~~~~I~~~~--~~~~l~~~l~sr~~~i~-~~  168 (331)
                      +......+.++    ....++||||+..|-   +.-..++-.+|+.   ..++|++-.  +.+.+...++++..++- +.
T Consensus        88 ~i~~~al~rA~----~~aDvIIIDEIGpMElks~~f~~~ve~vl~~---~kpliatlHrrsr~P~v~~ik~~~~v~v~lt  160 (179)
T COG1618          88 EIAIPALRRAL----EEADVIIIDEIGPMELKSKKFREAVEEVLKS---GKPLIATLHRRSRHPLVQRIKKLGGVYVFLT  160 (179)
T ss_pred             HHhHHHHHHHh----hcCCEEEEecccchhhccHHHHHHHHHHhcC---CCcEEEEEecccCChHHHHhhhcCCEEEEEc
Confidence            33333333332    235799999998773   3334444445543   333555543  34567788888887776 44


Q ss_pred             CCCHHHHHHHH
Q 020071          169 RLSDEEILSRL  179 (331)
Q Consensus       169 ~~~~~~~~~~l  179 (331)
                      |-+.+.+...+
T Consensus       161 ~~NR~~i~~~I  171 (179)
T COG1618         161 PENRNRILNEI  171 (179)
T ss_pred             cchhhHHHHHH
Confidence            44444433333

>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length

Probab=98.59  E-value=1.1e-06  Score=68.66  Aligned_cols=102  Identities=15%  Similarity=0.203  Sum_probs=86.3

Q ss_pred             cchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc------c------------
Q 020071          223 VNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY------E------------  284 (331)
Q Consensus       223 i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~------~------------  284 (331)
                      ||.++|.++++....+.++++++++.++|..+++..++++...|.++..++..+..+.+.+      +            
T Consensus         1 It~e~V~~~lG~v~~~~i~~l~~ai~~~d~~~~l~~~~~l~~~G~d~~~~l~~L~~~~R~ll~~k~~~~~~~~~~~~~~~   80 (143)
T PF12169_consen    1 ITAEDVREILGLVDEEQIFELLDAILEGDAAEALELLNELLEQGKDPKQFLDDLIEYLRDLLLYKITGDKSNLLELSEEE   80 (143)
T ss_dssp             B-HHHHHHHHTHTSTHHHHHHHHHHHTT-HHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHHHHTTSGGGS-SG--CTTT
T ss_pred             CCHHHHHHHHCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCCchhhcccCCHHH
Confidence            6789999999999999999999999999999999999999999999999999988876652      0            


Q ss_pred             ----------cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          285 ----------MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       285 ----------~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                                ++...+.++++.+.+++.+++...++++.+|..+++++..
T Consensus        81 ~~~~~~~a~~~~~~~l~~~~~~l~~~~~~lr~s~~pr~~lE~~llrl~~~  130 (143)
T PF12169_consen   81 EEKLKELAKKFSPERLQRILQILLEAENELRYSSNPRILLEMALLRLCQL  130 (143)
T ss_dssp             HHHHHHHHHHS-HHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHH
Confidence                      2222335888999999999999999999999999999974

It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.

>PHA00729 NTP-binding motif containing protein

Probab=98.56  E-value=4.5e-07  Score=75.21  Aligned_cols=128  Identities=16%  Similarity=0.133  Sum_probs=71.9

Q ss_pred             HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC--CceEEeecCC---CCChHhHHHHHHHHHhcccCCCCC
Q 020071           36 RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYR--EAVMELNASD---DRGIDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        36 ~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~--~~~~~~~~~~---~~~~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      ...+.+..+...+++|+|+||+|||++|.++++.+......  ..........   ....+.+.+.+.......     .
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fid~~~Ll~~L~~a~~~~-----~   81 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFFELPDALEKIQDAIDND-----Y   81 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEEEHHHHHHHHHHHHhcC-----C
Confidence            34445566666679999999999999999999987310000  0000000000   011223333333322211     1


Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHH
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVV  182 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~  182 (331)
                      +..++||||+.--...   .. -..+    .      ......+.+.++||+..+.|.+++++++...++.+
T Consensus        82 ~~dlLIIDd~G~~~~~---~~-wh~~----~------~~~yf~L~~aLrSR~~l~il~~ls~edL~~~Lr~R  139 (226)
T PHA00729         82 RIPLIIFDDAGIWLSK---YV-WYED----Y------MKTFYKIYALIRTRVSAVIFTTPSPEDLAFYLREK  139 (226)
T ss_pred             CCCEEEEeCCchhhcc---cc-hhhh----c------cchHHHHHHHHHhhCcEEEEecCCHHHHHHHHHhC
Confidence            2358899986432110   00 0000    0      01234567889999999999999999999988774

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

Probab=98.50  E-value=2.5e-06  Score=77.61  Aligned_cols=151  Identities=15%  Similarity=0.267  Sum_probs=89.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-CCh------HhHHHHHHHHHhcccCCCCCCceEEEEeCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-RGI------DVVRNKIKMFAQKKVTLPPGKHKVVVLDEAD  121 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-~~~------~~i~~~i~~~~~~~~~~~~~~~~vviide~d  121 (331)
                      +||.||+|+|||++|-.++..-     .++|+.+-.++. .|.      ..+......+..++       -.+++||+++
T Consensus       541 vLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~-------lsiivvDdiE  608 (744)
T KOG0741|consen  541 VLLEGPPGSGKTALAAKIALSS-----DFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSP-------LSIIVVDDIE  608 (744)
T ss_pred             EEEecCCCCChHHHHHHHHhhc-----CCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCc-------ceEEEEcchh
Confidence            7999999999999999999987     889988765432 222      23444445444444       4699999998


Q ss_pred             CCC----------HHHHHHHHHHHHHhcCC--cEEEEeeCCCCCCChhh--hcc-cceeeecCCCH-HHHHHHHHHHHHh
Q 020071          122 SMT----------AGAQQALRRTMEIYSNS--TRFALACNVSSKIIEPI--QSR-CAIVRFSRLSD-EEILSRLMVVVQE  185 (331)
Q Consensus       122 ~l~----------~~~~~~Ll~~le~~~~~--~~~I~~~~~~~~l~~~l--~sr-~~~i~~~~~~~-~~~~~~l~~~~~~  185 (331)
                      ++-          .-..++|+-++...|+.  -.+|++|+....++...  .+- ...++.+.++. +++.+.++..   
T Consensus       609 rLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~---  685 (744)
T KOG0741|consen  609 RLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEEL---  685 (744)
T ss_pred             hhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHc---
Confidence            772          23455666666655543  44666665432222111  111 13467777776 6777776652   


Q ss_pred             cCCCCCHHHHHHHHHhcCC-----CHHHHHHHHHHH
Q 020071          186 EKVPYVPEGLEAIIFTADG-----DMRQALNNLQAT  216 (331)
Q Consensus       186 ~~~~i~~~~~~~l~~~~~g-----~~r~~~~~l~~~  216 (331)
                       + .++++..+.+++.-.+     -+.+++.+++.+
T Consensus       686 -n-~fsd~~~~~~~~~~~~~~~~vgIKklL~lie~a  719 (744)
T KOG0741|consen  686 -N-IFSDDEVRAIAEQLLSKKVNVGIKKLLMLIEMA  719 (744)
T ss_pred             -c-CCCcchhHHHHHHHhccccchhHHHHHHHHHHH
Confidence             2 2444444444433222     255556665554

>PRK09183 transposase/IS protein; Provisional

Probab=98.50  E-value=3.1e-07  Score=79.01  Aligned_cols=96  Identities=21%  Similarity=0.248  Sum_probs=57.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHH-----HHHHHhcccCCCCCCceEEEEeCCCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNK-----IKMFAQKKVTLPPGKHKVVVLDEADS  122 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~-----i~~~~~~~~~~~~~~~~vviide~d~  122 (331)
                      +++|+||+|+|||+++.+++......+  ..+..++..+..  ..+...     +.......    .....++||||++.
T Consensus       104 ~v~l~Gp~GtGKThLa~al~~~a~~~G--~~v~~~~~~~l~--~~l~~a~~~~~~~~~~~~~----~~~~dlLiiDdlg~  175 (259)
T PRK09183        104 NIVLLGPSGVGKTHLAIALGYEAVRAG--IKVRFTTAADLL--LQLSTAQRQGRYKTTLQRG----VMAPRLLIIDEIGY  175 (259)
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEeHHHHH--HHHHHHHHCCcHHHHHHHH----hcCCCEEEEccccc
Confidence            589999999999999999988754332  233333322110  011000     11111111    12356999999987


Q ss_pred             C--CHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          123 M--TAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       123 l--~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      .  +....+.|..+++....+..+|+++|..
T Consensus       176 ~~~~~~~~~~lf~li~~r~~~~s~iiTsn~~  206 (259)
T PRK09183        176 LPFSQEEANLFFQVIAKRYEKGSMILTSNLP  206 (259)
T ss_pred             CCCChHHHHHHHHHHHHHHhcCcEEEecCCC
Confidence            4  4566678888887644445678888764

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=98.50  E-value=1.7e-05  Score=70.99  Aligned_cols=75  Identities=13%  Similarity=0.177  Sum_probs=51.3

Q ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHHHhc--CCcEEEEeeCCCCCCCh----------------hhhcc-cc-eeeecC
Q 020071          110 GKHKVVVLDEADSMTAGAQQALRRTMEIYS--NSTRFALACNVSSKIIE----------------PIQSR-CA-IVRFSR  169 (331)
Q Consensus       110 ~~~~vviide~d~l~~~~~~~Ll~~le~~~--~~~~~I~~~~~~~~l~~----------------~l~sr-~~-~i~~~~  169 (331)
                      ..+-||+|||.|+++++....+++.+...-  +++.+|++.+.. .+..                ....+ ++ .+.+++
T Consensus       171 ~~~iViiIDdLDR~~~~~i~~~l~~ik~~~~~~~i~~Il~~D~~-~l~~ai~~~~~~~~~~~~~~~yLeKiiq~~~~lP~  249 (325)
T PF07693_consen  171 KKRIVIIIDDLDRCSPEEIVELLEAIKLLLDFPNIIFILAFDPE-ILEKAIEKNYGEGFDEIDGREYLEKIIQVPFSLPP  249 (325)
T ss_pred             CceEEEEEcchhcCCcHHHHHHHHHHHHhcCCCCeEEEEEecHH-HHHHHHHhhcCcccccccHHHHHHhhcCeEEEeCC
Confidence            457899999999999987777777666322  578888887541 1111                11222 23 378899


Q ss_pred             CCHHHHHHHHHHHHHh
Q 020071          170 LSDEEILSRLMVVVQE  185 (331)
Q Consensus       170 ~~~~~~~~~l~~~~~~  185 (331)
                      ++..++..++...+..
T Consensus       250 ~~~~~~~~~~~~~~~~  265 (325)
T PF07693_consen  250 PSPSDLERYLNELLES  265 (325)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999888877543

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

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

Probab=98.48  E-value=5.6e-07  Score=77.05  Aligned_cols=102  Identities=24%  Similarity=0.335  Sum_probs=60.2

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHH-HHhcccCCCCCCceEEEEeCCCCC-
Q 020071           46 MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKM-FAQKKVTLPPGKHKVVVLDEADSM-  123 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~-~~~~~~~~~~~~~~vviide~d~l-  123 (331)
                      ..+++|+||+|+|||++|.++++.+...  +..+..++.++.  ...+...... .....+........++||||+... 
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~~--g~sv~f~~~~el--~~~Lk~~~~~~~~~~~l~~~l~~~dlLIiDDlG~~~  180 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNELLKA--GISVLFITAPDL--LSKLKAAFDEGRLEEKLLRELKKVDLLIIDDIGYEP  180 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHc--CCeEEEEEHHHH--HHHHHHHHhcCchHHHHHHHhhcCCEEEEecccCcc
Confidence            3359999999999999999999998733  334444443321  1122221111 000000000234679999998775 


Q ss_pred             -CHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          124 -TAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       124 -~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                       +....+.+..++...-..-..++++|.+
T Consensus       181 ~~~~~~~~~~q~I~~r~~~~~~~~tsN~~  209 (254)
T COG1484         181 FSQEEADLLFQLISRRYESRSLIITSNLS  209 (254)
T ss_pred             CCHHHHHHHHHHHHHHHhhccceeecCCC
Confidence             4555677777776544444448888764

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.47  E-value=7.2e-06  Score=78.85  Aligned_cols=177  Identities=18%  Similarity=0.221  Sum_probs=110.3

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHH-----
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVR-----   94 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~-----   94 (331)
                      +|......+-+++....|....   ...-++|+.|.|+||||++-.++. ...++.....+.++.++.....-..     
T Consensus        14 ~P~~~~~~v~R~rL~~~L~~~~---~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlslde~dndp~rF~~yLi~a   89 (894)
T COG2909          14 RPVRPDNYVVRPRLLDRLRRAN---DYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLDESDNDPARFLSYLIAA   89 (894)
T ss_pred             CCCCcccccccHHHHHHHhcCC---CceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecCCccCCHHHHHHHHHHH
Confidence            4556666777777666655442   222379999999999999999987 3333333333333333321110011     


Q ss_pred             -------------------------HHHHHHHhcccCCCCCCceEEEEeCCCCCCHHH-HHHHHHHHHHhcCCcEEEEee
Q 020071           95 -------------------------NKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA-QQALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus        95 -------------------------~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~-~~~Ll~~le~~~~~~~~I~~~  148 (331)
                                               ..+.......  ....++-.+||||.|..+... ...|..+++..|++..+|++|
T Consensus        90 l~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~El--a~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~S  167 (894)
T COG2909          90 LQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNEL--ASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTS  167 (894)
T ss_pred             HHHhCccccHHHHHHHHhcccccHHHHHHHHHHHH--HhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEe
Confidence                                     1111111100  002345799999999997655 556777788889999999998


Q ss_pred             CCCCCC-Chhhhcccceee----ecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC
Q 020071          149 NVSSKI-IEPIQSRCAIVR----FSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGD  205 (331)
Q Consensus       149 ~~~~~l-~~~l~sr~~~i~----~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~  205 (331)
                      .....+ +..++=|-..++    --.++.+|..+++...   .+..++...++.|...++|=
T Consensus       168 R~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~---~~l~Ld~~~~~~L~~~teGW  226 (894)
T COG2909         168 RSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDR---GSLPLDAADLKALYDRTEGW  226 (894)
T ss_pred             ccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHc---CCCCCChHHHHHHHhhcccH
Confidence            765433 344444433332    2256788999998773   35789999999999999873

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

Probab=98.44  E-value=2.8e-05  Score=66.04  Aligned_cols=183  Identities=17%  Similarity=0.170  Sum_probs=104.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcC-CCCCCceEEeecCCCCChHhHHHHHHHH---Hhccc-----CCCCCCceEEEEe
Q 020071           48 NLILAGPPGTGKTTSILALAHELLG-PNYREAVMELNASDDRGIDVVRNKIKMF---AQKKV-----TLPPGKHKVVVLD  118 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~i~~~i~~~---~~~~~-----~~~~~~~~vviid  118 (331)
                      .+|+.||.|.||+.+|+.+...-.. ......|+++||....+...........   .+...     -+...++.++++|
T Consensus       210 p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsadggmlfld  289 (531)
T COG4650         210 PILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSADGGMLFLD  289 (531)
T ss_pred             CeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccCCCceEehH
Confidence            3999999999999999988654221 2235689999998876644333332111   11000     0124578899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCC-------CCCCChhhhcccceeeecCCCHH----H--
Q 020071          119 EADSMTAGAQQALRRTMEIYS-----------NSTRFALACNV-------SSKIIEPIQSRCAIVRFSRLSDE----E--  174 (331)
Q Consensus       119 e~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~-------~~~l~~~l~sr~~~i~~~~~~~~----~--  174 (331)
                      |+..+..+.|..|++.+|+..           .+..+|.-+..       ....-..+-.|...+.|.-|.-.    +  
T Consensus       290 eigelgadeqamllkaieekrf~pfgsdr~v~sdfqliagtvrdlrq~vaeg~fredl~arinlwtf~lpgl~qr~edie  369 (531)
T COG4650         290 EIGELGADEQAMLLKAIEEKRFYPFGSDRQVSSDFQLIAGTVRDLRQLVAEGKFREDLYARINLWTFTLPGLRQRQEDIE  369 (531)
T ss_pred             hhhhcCccHHHHHHHHHHhhccCCCCCccccccchHHhhhhHHHHHHHHhccchHHHHHHhhheeeeeccccccCccccC
Confidence            999999999999999999632           12222222211       11222334444444544433321    1  


Q ss_pred             --HHHHHHHHHHhc--CCCCCHHHHHHHHHhc-------CCCHHHHHHHHHHHh--hCCCccchhhhhh
Q 020071          175 --ILSRLMVVVQEE--KVPYVPEGLEAIIFTA-------DGDMRQALNNLQATY--SGFRFVNQENVFK  230 (331)
Q Consensus       175 --~~~~l~~~~~~~--~~~i~~~~~~~l~~~~-------~g~~r~~~~~l~~~~--~~~~~i~~~~v~~  230 (331)
                        +..-+.+.+...  .+.+..++-..-....       .||.|.+-.-+-.++  ..++.||.+.|.+
T Consensus       370 pnldyelerha~~~g~~vrfntearra~l~fa~spqa~w~gnfrelsasvtrmatlad~grit~~~ve~  438 (531)
T COG4650         370 PNLDYELERHASLTGDSVRFNTEARRAWLAFATSPQATWRGNFRELSASVTRMATLADSGRITLDVVED  438 (531)
T ss_pred             CCccHHHHHHHHhhCceeeeehHHHHHHHHhccCcchhhcccHHHHhHHHHHHHHHhcCCceeHHHHHH
Confidence              111233333333  3445555544333222       488988777665543  4566788877764

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.43  E-value=3.2e-07  Score=74.89  Aligned_cols=48  Identities=33%  Similarity=0.517  Sum_probs=33.2

Q ss_pred             ccccCHHHHHHHHHHHH---cCCCCeEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           26 DIVGNLDAVARLGIIAR---DGNMPNLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~---~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      .++|++..++.+...+.   .+..+.++++|++|+|||++++.+...+...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            37899999999999983   2333448999999999999999998887543

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.36  E-value=2.9e-06  Score=62.70  Aligned_cols=72  Identities=28%  Similarity=0.397  Sum_probs=45.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC---CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN---YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA  125 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~---~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~  125 (331)
                      ++||||+|+|||++++.+++.+....   ....++..+..+.    -+    ..         -.+..++++||+.....
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~~~~~~~----~w----~g---------Y~~q~vvi~DD~~~~~~   63 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYTRNPGDK----FW----DG---------YQGQPVVIIDDFGQDND   63 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEeCCCccc----hh----hc---------cCCCcEEEEeecCcccc
Confidence            57999999999999999999885321   1122322222211    11    10         23568999999988764


Q ss_pred             H----HHHHHHHHHHH
Q 020071          126 G----AQQALRRTMEI  137 (331)
Q Consensus       126 ~----~~~~Ll~~le~  137 (331)
                      .    ....+++++..
T Consensus        64 ~~~~~~~~~l~~l~s~   79 (107)
T PF00910_consen   64 GYNYSDESELIRLISS   79 (107)
T ss_pred             ccchHHHHHHHHHHhc
Confidence            3    45667777664

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]

Probab=98.34  E-value=3.3e-06  Score=76.53  Aligned_cols=133  Identities=23%  Similarity=0.329  Sum_probs=81.4

Q ss_pred             ccccCHHHHHHHHHHHHcCC---CC---------eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH--
Q 020071           26 DIVGNLDAVARLGIIARDGN---MP---------NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID--   91 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~~---~~---------~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~--   91 (331)
                      .+.|++++++.+.=++-+|.   +|         +||+.|.||+.|+.+.+.+-+-.       ++..+...+..+..  
T Consensus       332 SIfG~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvs-------PIaVYTSGKGSSAAGL  404 (729)
T KOG0481|consen  332 SIFGHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVS-------PIAVYTSGKGSSAAGL  404 (729)
T ss_pred             hhcCchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcC-------ceEEEecCCCcccccc
Confidence            46689998888776665432   11         48999999999999999877643       22222222111100  


Q ss_pred             ---hHHHHH-HHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeCCCC--
Q 020071           92 ---VVRNKI-KMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACNVSS--  152 (331)
Q Consensus        92 ---~i~~~i-~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~~~~--  152 (331)
                         .+++.. .++.-....+--++++||.|||+|+|.++..-++.+.||..             ...|.++.++|...  
T Consensus       405 TASV~RD~~tReFylEGGAMVLADgGVvCIDEFDKMre~DRVAIHEAMEQQTISIAKAGITT~LNSRtSVLAAANpvfGR  484 (729)
T KOG0481|consen  405 TASVIRDPSTREFYLEGGAMVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTISIAKAGITTTLNSRTSVLAAANPVFGR  484 (729)
T ss_pred             eeeEEecCCcceEEEecceEEEecCCEEEeehhhccCchhhhHHHHHHHhhhHHHhhhcceeeecchhhhhhhcCCcccc
Confidence               011100 00000000111356889999999999999999999999853             23455666666531  


Q ss_pred             -----------CCChhhhccccee
Q 020071          153 -----------KIIEPIQSRCAIV  165 (331)
Q Consensus       153 -----------~l~~~l~sr~~~i  165 (331)
                                 .+.+++.||+..+
T Consensus       485 yDd~Kt~~dNIDf~~TILSRFDmI  508 (729)
T KOG0481|consen  485 YDDTKTGEDNIDFMPTILSRFDMI  508 (729)
T ss_pred             ccccCCcccccchhhhHhhhccEE
Confidence                       3458999998654

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=98.33  E-value=1e-05  Score=70.97  Aligned_cols=183  Identities=18%  Similarity=0.197  Sum_probs=106.9

Q ss_pred             ccccCHHHHHHHHHHHHcC--CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC----------------
Q 020071           26 DIVGNLDAVARLGIIARDG--NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD----------------   86 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~--~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~----------------   86 (331)
                      .+.+++..+..|...+...  ..|. +++||.+|+|||.+.+.+.+..+     .+.+.+++-+                
T Consensus         7 ~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n-----~~~vw~n~~ecft~~~lle~IL~~~~   81 (438)
T KOG2543|consen    7 NVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLN-----LENVWLNCVECFTYAILLEKILNKSQ   81 (438)
T ss_pred             CccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcC-----CcceeeehHHhccHHHHHHHHHHHhc
Confidence            5678899999999998664  3566 69999999999999999999883     3333333211                


Q ss_pred             ---CCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHH---HHHHHHHHHHhc-CCcEEEEeeCCCCC
Q 020071           87 ---DRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA---QQALRRTMEIYS-NSTRFALACNVSSK  153 (331)
Q Consensus        87 ---~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~---~~~Ll~~le~~~-~~~~~I~~~~~~~~  153 (331)
                         ..+      .+.+.+.+..+.+.+.....+..-.+|+|++|.+..-.   .+.|.+.-+-.+ +.++++++.....+
T Consensus        82 ~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~~e~  161 (438)
T KOG2543|consen   82 LADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAPSCEK  161 (438)
T ss_pred             cCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEeccccHH
Confidence               111      12333444444443322223456789999999886433   334444433222 35666666554333


Q ss_pred             CCh--hhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHH----HHH----HHHHhcCCCHHHHHHHHHHHh
Q 020071          154 IIE--PIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPE----GLE----AIIFTADGDMRQALNNLQATY  217 (331)
Q Consensus       154 l~~--~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~----~~~----~l~~~~~g~~r~~~~~l~~~~  217 (331)
                      ...  +=..-..++.|+.++.+++..++.+--  .| ....+    -++    -+...++ |+..+...+....
T Consensus       162 ~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~--p~-~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~~w  231 (438)
T KOG2543|consen  162 QYLINTGTLEIVVLHFPQYSVEETQVILSRDN--PG-KRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISLAW  231 (438)
T ss_pred             HhhcccCCCCceEEecCCCCHHHHHHHHhcCC--cc-ccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHHH
Confidence            221  111123567999999999999886521  11 11211    111    2223344 8888777776553

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

Probab=98.32  E-value=1e-07  Score=84.97  Aligned_cols=151  Identities=21%  Similarity=0.268  Sum_probs=77.4

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHcCC------------CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARDGN------------MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~------------~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      +.....|    .+.|++.++..+.=.+-+|.            .-|+||.|.||+|||.+.+.+.+...      ..+..
T Consensus        18 l~~s~aP----~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~p------r~v~~   87 (331)
T PF00493_consen   18 LANSIAP----SIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAP------RSVYT   87 (331)
T ss_dssp             CHHHCSS----TTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-S------SEEEE
T ss_pred             HHHHhCC----cCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhCC------ceEEE
Confidence            4445555    56688887775433332221            12699999999999999987655432      12222


Q ss_pred             ecCCC--CCh--HhHHH-HHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH-------------hcCCcEE
Q 020071           83 NASDD--RGI--DVVRN-KIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI-------------YSNSTRF  144 (331)
Q Consensus        83 ~~~~~--~~~--~~i~~-~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~-------------~~~~~~~  144 (331)
                      ++...  .+.  ...++ .-..+.-.+..+..+.++|++|||+|++..+....|++.||.             .+.++.+
T Consensus        88 ~g~~~s~~gLta~~~~d~~~~~~~leaGalvlad~GiccIDe~dk~~~~~~~~l~eaMEqq~isi~kagi~~~l~ar~sv  167 (331)
T PF00493_consen   88 SGKGSSAAGLTASVSRDPVTGEWVLEAGALVLADGGICCIDEFDKMKEDDRDALHEAMEQQTISIAKAGIVTTLNARCSV  167 (331)
T ss_dssp             ECCGSTCCCCCEEECCCGGTSSECEEE-HHHHCTTSEEEECTTTT--CHHHHHHHHHHHCSCEEECTSSSEEEEE---EE
T ss_pred             CCCCcccCCccceeccccccceeEEeCCchhcccCceeeecccccccchHHHHHHHHHHcCeeccchhhhcccccchhhh
Confidence            21110  000  00000 000011000001135689999999999999999999999994             2456778


Q ss_pred             EEeeCCCC-------------CCChhhhccccee--eecCCCHHHH
Q 020071          145 ALACNVSS-------------KIIEPIQSRCAIV--RFSRLSDEEI  175 (331)
Q Consensus       145 I~~~~~~~-------------~l~~~l~sr~~~i--~~~~~~~~~~  175 (331)
                      +.++|...             .+.+++.|||..+  -..+++.+.-
T Consensus       168 laa~NP~~g~~~~~~~~~~ni~l~~~LLSRFDLif~l~D~~d~~~D  213 (331)
T PF00493_consen  168 LAAANPKFGRYDPNKSLSENINLPPPLLSRFDLIFLLRDKPDEEED  213 (331)
T ss_dssp             EEEE--TT--S-TTS-CGCCT-S-CCCHCC-SEEECC--TTT-HHH
T ss_pred             HHHHhhhhhhcchhhhhHHhcccchhhHhhcCEEEEeccccccccc
Confidence            88887643             4678999998765  2456654433

; 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.

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=98.31  E-value=5.6e-05  Score=68.12  Aligned_cols=106  Identities=13%  Similarity=0.129  Sum_probs=67.7

Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHh------cCCcEEEEeeCCCC---CCChhhhcc-cceeeecCCCHHHHHHHHH
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTMEIY------SNSTRFALACNVSS---KIIEPIQSR-CAIVRFSRLSDEEILSRLM  180 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le~~------~~~~~~I~~~~~~~---~l~~~l~sr-~~~i~~~~~~~~~~~~~l~  180 (331)
                      .+.|||||++..-... .+.+.+.+-+-      ..-..+||.|++..   .|.+++-+| +..+.+.-.+++....++.
T Consensus       148 ~~PVVVIdnF~~k~~~-~~~iy~~laeWAa~Lv~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~  226 (431)
T PF10443_consen  148 RRPVVVIDNFLHKAEE-NDFIYDKLAEWAASLVQNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVL  226 (431)
T ss_pred             cCCEEEEcchhccCcc-cchHHHHHHHHHHHHHhcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHH
Confidence            3789999998765443 33333333221      12345777777653   344555555 6778999999999999999


Q ss_pred             HHHHhcC-C-------------------CCCHHHHHHHHHhcCCCHHHHHHHHHHHh
Q 020071          181 VVVQEEK-V-------------------PYVPEGLEAIIFTADGDMRQALNNLQATY  217 (331)
Q Consensus       181 ~~~~~~~-~-------------------~i~~~~~~~l~~~~~g~~r~~~~~l~~~~  217 (331)
                      ..+.... .                   ..+...++..+..-||-+..+-.+++..-
T Consensus       227 ~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRik  283 (431)
T PF10443_consen  227 SQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIK  283 (431)
T ss_pred             HHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            8876531 0                   12445566777777887777666666553

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=98.29  E-value=6.8e-07  Score=71.51  Aligned_cols=126  Identities=19%  Similarity=0.360  Sum_probs=64.2

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCC-----------------CCceEEeecC--------C-C--CChHhHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNY-----------------REAVMELNAS--------D-D--RGIDVVRNKIKM   99 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~-----------------~~~~~~~~~~--------~-~--~~~~~i~~~i~~   99 (331)
                      |++|+|++|+||||+++.+.+.+...+.                 ++.++.+...        . .  .......-..+.
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~~~~~v~Gf~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~~e~   80 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKKKGLPVGGFYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVDLES   80 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHHTCGGEEEEEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-HHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhccCCccceEEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEcHHH
Confidence            5899999999999999999998832210                 1122222110        0 0  000000001122


Q ss_pred             HHhcccCCCC---CCceEEEEeCCCCC---CHHHHHHHHHHHHHhcCCcEEEEeeCC--CCCCChhhhcc--cceeeecC
Q 020071          100 FAQKKVTLPP---GKHKVVVLDEADSM---TAGAQQALRRTMEIYSNSTRFALACNV--SSKIIEPIQSR--CAIVRFSR  169 (331)
Q Consensus       100 ~~~~~~~~~~---~~~~vviide~d~l---~~~~~~~Ll~~le~~~~~~~~I~~~~~--~~~l~~~l~sr--~~~i~~~~  169 (331)
                      +.........   ....+++|||+..|   ++.-.+++.++|+   .+..+|.+-..  ...+.+.+++|  +.++.+.+
T Consensus        81 fe~~~~~~L~~~~~~~~liviDEIG~mEl~~~~F~~~v~~~l~---s~~~vi~vv~~~~~~~~l~~i~~~~~~~i~~vt~  157 (168)
T PF03266_consen   81 FEEIGLPALRNALSSSDLIVIDEIGKMELKSPGFREAVEKLLD---SNKPVIGVVHKRSDNPFLEEIKRRPDVKIFEVTE  157 (168)
T ss_dssp             HHCCCCCCCHHHHHCCHEEEE---STTCCC-CHHHHHHHHHHC---TTSEEEEE--SS--SCCHHHHHTTTTSEEEE--T
T ss_pred             HHHHHHHHHHhhcCCCCEEEEeccchhhhcCHHHHHHHHHHHc---CCCcEEEEEecCCCcHHHHHHHhCCCcEEEEeCh
Confidence            2221111001   24679999999877   4556788888888   23445554333  35688999998  67777776


Q ss_pred             CCHHHHH
Q 020071          170 LSDEEIL  176 (331)
Q Consensus       170 ~~~~~~~  176 (331)
                      -+.+.+.
T Consensus       158 ~NRd~l~  164 (168)
T PF03266_consen  158 ENRDALP  164 (168)
T ss_dssp             TTCCCHH
T ss_pred             hHHhhHh
Confidence            6655443

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PHA02774 E1; Provisional

Probab=98.26  E-value=1e-05  Score=75.59  Aligned_cols=138  Identities=20%  Similarity=0.268  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCC
Q 020071           32 DAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        32 ~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      .....|+.++++..-.+ ++||||||+|||+++..+++.+.+    ..+..+|....            +.-.+    ..
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~G----~vi~fvN~~s~------------FwLqp----l~  478 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLKG----KVISFVNSKSH------------FWLQP----LA  478 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCC----CEEEEEECccc------------cccch----hc
Confidence            34556677775432223 899999999999999999999832    12222443211            11111    34


Q ss_pred             CceEEEEeCCCCC-CHHHHHHHHHHHHHhc-------------CCcEEEEeeCCC---CCCChhhhcccceeeec-----
Q 020071          111 KHKVVVLDEADSM-TAGAQQALRRTMEIYS-------------NSTRFALACNVS---SKIIEPIQSRCAIVRFS-----  168 (331)
Q Consensus       111 ~~~vviide~d~l-~~~~~~~Ll~~le~~~-------------~~~~~I~~~~~~---~~l~~~l~sr~~~i~~~-----  168 (331)
                      +.+++++||+-.- ..-....|..+|+..+             ...++|+++|-.   ..-.+.|.||...+.|+     
T Consensus       479 d~ki~vlDD~t~~~w~y~d~~Lrn~LdG~~v~lD~Khk~~~q~k~pPlIITSN~d~~~~~~~~yL~sRi~~f~F~n~~P~  558 (613)
T PHA02774        479 DAKIALLDDATHPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKAEDRYKYLHSRITVFEFPNPFPL  558 (613)
T ss_pred             cCCEEEEecCcchHHHHHHHHHHHHcCCCcceeeecccCcccccCCCEEEecCCCcccchhhHHhhhhEEEEECCCCCCc
Confidence            5789999999222 1223445677776432             124588888753   23457888998887665     


Q ss_pred             --------CCCHHHHHHHHHHHHHhcCCC
Q 020071          169 --------RLSDEEILSRLMVVVQEEKVP  189 (331)
Q Consensus       169 --------~~~~~~~~~~l~~~~~~~~~~  189 (331)
                              .+++...+.++++...+.++.
T Consensus       559 d~~G~P~f~ltd~~WKsFF~rlw~~LdL~  587 (613)
T PHA02774        559 DENGNPVFELTDANWKSFFERLWSQLDLS  587 (613)
T ss_pred             CCCCCEeeeeCchhHHHHHHHHHHHcCCC
Confidence                    234466777787777665544

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

Probab=98.21  E-value=8.1e-06  Score=60.97  Aligned_cols=57  Identities=21%  Similarity=0.226  Sum_probs=42.9

Q ss_pred             ccccCHHHHHHHHHHHHc----C--CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           26 DIVGNLDAVARLGIIARD----G--NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~----~--~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      .+.||.-+.+.+.++++.    .  +-|- +-|+|++|+|||.+++.+|+.+...+...+++..
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~   89 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQ   89 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceee
Confidence            588999888776666653    2  2232 4799999999999999999998877666655543

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

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.18  E-value=0.00046  Score=63.23  Aligned_cols=132  Identities=21%  Similarity=0.213  Sum_probs=83.2

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCCh-HhHHHHHHHHHhcccCCCCCC
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGI-DVVRNKIKMFAQKKVTLPPGK  111 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~-~~i~~~i~~~~~~~~~~~~~~  111 (331)
                      ....+.+.+..... .++++||.++|||++++.+.+.+..     ..+.++..+.... ....+....+.....    .+
T Consensus        25 ~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~-----~~iy~~~~d~~~~~~~l~d~~~~~~~~~~----~~   94 (398)
T COG1373          25 LLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLE-----EIIYINFDDLRLDRIELLDLLRAYIELKE----RE   94 (398)
T ss_pred             hhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCc-----ceEEEEecchhcchhhHHHHHHHHHHhhc----cC
Confidence            33444444444332 4799999999999999888887742     2566665554222 233444444444332    15


Q ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC----CCCChhhhcccceeeecCCCHHHHHH
Q 020071          112 HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS----SKIIEPIQSRCAIVRFSRLSDEEILS  177 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~----~~l~~~l~sr~~~i~~~~~~~~~~~~  177 (331)
                      ...+++||++.... -...+..+.+..+.  .+++++.+.    .+..+.+.-|...+.+.|++-.|...
T Consensus        95 ~~yifLDEIq~v~~-W~~~lk~l~d~~~~--~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373          95 KSYIFLDEIQNVPD-WERALKYLYDRGNL--DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             CceEEEecccCchh-HHHHHHHHHccccc--eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence            67999999999854 34444445554333  455554443    35567777888999999999888865

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=98.17  E-value=1e-05  Score=66.73  Aligned_cols=113  Identities=25%  Similarity=0.332  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH-------HHHHhcc
Q 020071           32 DAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI-------KMFAQKK  104 (331)
Q Consensus        32 ~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i-------~~~~~~~  104 (331)
                      .....+...+.++. ...++.|++|+|||+++..+.+.+...  +..++-+.+... ....+.+..       ..+....
T Consensus         5 ~Q~~a~~~~l~~~~-~~~~l~G~aGtGKT~~l~~~~~~~~~~--g~~v~~~apT~~-Aa~~L~~~~~~~a~Ti~~~l~~~   80 (196)
T PF13604_consen    5 EQREAVRAILTSGD-RVSVLQGPAGTGKTTLLKALAEALEAA--GKRVIGLAPTNK-AAKELREKTGIEAQTIHSFLYRI   80 (196)
T ss_dssp             HHHHHHHHHHHCTC-SEEEEEESTTSTHHHHHHHHHHHHHHT--T--EEEEESSHH-HHHHHHHHHTS-EEEHHHHTTEE
T ss_pred             HHHHHHHHHHhcCC-eEEEEEECCCCCHHHHHHHHHHHHHhC--CCeEEEECCcHH-HHHHHHHhhCcchhhHHHHHhcC
Confidence            44555666666654 236899999999999999998887554  234444433321 112222221       1111111


Q ss_pred             cCC------CCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          105 VTL------PPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       105 ~~~------~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ...      ......++||||+..++......|++....  .++++|++.+.
T Consensus        81 ~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~  130 (196)
T PF13604_consen   81 PNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDP  130 (196)
T ss_dssp             CCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-T
T ss_pred             CcccccccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCc
Confidence            100      023457999999999998887888877765  46788888754

>PRK04296 thymidine kinase; Provisional

Probab=98.16  E-value=2.2e-05  Score=64.41  Aligned_cols=93  Identities=16%  Similarity=0.170  Sum_probs=55.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC-C-C---------CC-------hHhHHHHHHHHHhcccCCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS-D-D---------RG-------IDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~-~-~---------~~-------~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      .+++||+|+|||+++..++..+...+  ..++.+.+. + .         .+       .....+.+..+.. .    .+
T Consensus         5 ~litG~~GsGKTT~~l~~~~~~~~~g--~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~----~~   77 (190)
T PRK04296          5 EFIYGAMNSGKSTELLQRAYNYEERG--MKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-E----GE   77 (190)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHcC--CeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-h----CC
Confidence            59999999999999999988875432  222222221 0 0         01       1112223222222 1    34


Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      +..+|+|||++.++.+....|.+.+..  .++.+|++...
T Consensus        78 ~~dvviIDEaq~l~~~~v~~l~~~l~~--~g~~vi~tgl~  115 (190)
T PRK04296         78 KIDCVLIDEAQFLDKEQVVQLAEVLDD--LGIPVICYGLD  115 (190)
T ss_pred             CCCEEEEEccccCCHHHHHHHHHHHHH--cCCeEEEEecC
Confidence            578999999999987756666666653  44566666543

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=98.11  E-value=0.00021  Score=64.63  Aligned_cols=97  Identities=24%  Similarity=0.259  Sum_probs=57.4

Q ss_pred             HHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEe
Q 020071           39 IIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLD  118 (331)
Q Consensus        39 ~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviid  118 (331)
                      .+++.+.  |+++.||+|||||+++.++.....|...          ....   ..+++......... .-+...+|+||
T Consensus       204 ~fve~~~--Nli~lGp~GTGKThla~~l~~~~a~~sG----------~f~T---~a~Lf~~L~~~~lg-~v~~~DlLI~D  267 (449)
T TIGR02688       204 PLVEPNY--NLIELGPKGTGKSYIYNNLSPYVILISG----------GTIT---VAKLFYNISTRQIG-LVGRWDVVAFD  267 (449)
T ss_pred             HHHhcCC--cEEEECCCCCCHHHHHHHHhHHHHHHcC----------CcCc---HHHHHHHHHHHHHh-hhccCCEEEEE
Confidence            4455543  6999999999999999998877322111          1111   11222222211110 03567899999


Q ss_pred             CCCCCCH----HHHHHHHHHHHHh---------cCCcEEEEeeCCC
Q 020071          119 EADSMTA----GAQQALRRTMEIY---------SNSTRFALACNVS  151 (331)
Q Consensus       119 e~d~l~~----~~~~~Ll~~le~~---------~~~~~~I~~~~~~  151 (331)
                      |+..++-    +..+.|..+|+..         ..++.++|..|-.
T Consensus       268 Evgylp~~~~~~~v~imK~yMesg~fsRG~~~~~a~as~vfvGNi~  313 (449)
T TIGR02688       268 EVATLKFAKPKELIGILKNYMESGSFTRGDETKSSDASFVFLGNVP  313 (449)
T ss_pred             cCCCCcCCchHHHHHHHHHHHHhCceeccceeeeeeeEEEEEcccC
Confidence            9998643    3456777778742         2455677776643

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.

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=98.11  E-value=0.00025  Score=61.15  Aligned_cols=151  Identities=16%  Similarity=0.201  Sum_probs=92.9

Q ss_pred             ccccCHHHHHH---HHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHh
Q 020071           26 DIVGNLDAVAR---LGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQ  102 (331)
Q Consensus        26 ~~ig~~~~~~~---l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~  102 (331)
                      +++-.+++++.   +.+.+...+ .|+++.|..|+||+++++..+--.     +..++++......+..++++.++.+..
T Consensus         9 ~lVlf~~ai~hi~ri~RvL~~~~-Gh~LLvG~~GsGr~sl~rLaa~i~-----~~~~~~i~~~~~y~~~~f~~dLk~~~~   82 (268)
T PF12780_consen    9 NLVLFDEAIEHIARISRVLSQPR-GHALLVGVGGSGRQSLARLAAFIC-----GYEVFQIEITKGYSIKDFKEDLKKALQ   82 (268)
T ss_dssp             -----HHHHHHHHHHHHHHCSTT-EEEEEECTTTSCHHHHHHHHHHHT-----TEEEE-TTTSTTTHHHHHHHHHHHHHH
T ss_pred             ceeeHHHHHHHHHHHHHHHcCCC-CCeEEecCCCccHHHHHHHHHHHh-----ccceEEEEeeCCcCHHHHHHHHHHHHH
Confidence            34445556654   444454433 579999999999999999666654     667777777666677888888877665


Q ss_pred             cccCCCCCCceEEEEeCCCCCCHH---H------------------HHHHH---------------------HHHHHhcC
Q 020071          103 KKVTLPPGKHKVVVLDEADSMTAG---A------------------QQALR---------------------RTMEIYSN  140 (331)
Q Consensus       103 ~~~~~~~~~~~vviide~d~l~~~---~------------------~~~Ll---------------------~~le~~~~  140 (331)
                      ....  .++..+++++|.+-..+.   .                  .+.+.                     -+++....
T Consensus        83 ~ag~--~~~~~vfll~d~qi~~~~fLe~in~LL~sGeip~LF~~eE~~~i~~~l~~~~~~~~~~~~~~~~~~~F~~rvr~  160 (268)
T PF12780_consen   83 KAGI--KGKPTVFLLTDSQIVDESFLEDINSLLSSGEIPNLFTKEELDNIISSLREEAKAEGISDSRESLYEFFIERVRK  160 (268)
T ss_dssp             HHHC--S-S-EEEEEECCCSSSCHHHHHHHHHHHCSS-TTTS-TCHHHHHHHHHHHHHHHCT--SSHHHHHHHHHHHHCC
T ss_pred             HHhc--cCCCeEEEecCcccchHhHHHHHHHHHhCCCCCCCccHHHHHHHHHHhHHHHHHcCCCCchHHHHHHHHHHHHh
Confidence            4321  456778888887654321   1                  11111                     12223346


Q ss_pred             CcEEEEeeCCCCC-------CChhhhcccceeeecCCCHHHHHHHHHHHHH
Q 020071          141 STRFALACNVSSK-------IIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ  184 (331)
Q Consensus       141 ~~~~I~~~~~~~~-------l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~  184 (331)
                      +..+|++.++...       -.|++.++|.+.-|.+.+.+.+..+-....+
T Consensus       161 nLHivl~~sp~~~~~r~~~~~fPaL~~~ctIdW~~~W~~eaL~~Va~~~l~  211 (268)
T PF12780_consen  161 NLHIVLCMSPVGPNFRDRCRSFPALVNCCTIDWFDPWPEEALLSVANKFLS  211 (268)
T ss_dssp             CEEEEEEESTTTTCCCHHHHHHCCHHHHSEEEEEES--HHHHHHHHHHHCC
T ss_pred             heeEEEEECCCCchHHHHHHhCcchhcccEEEeCCcCCHHHHHHHHHHHHH
Confidence            6778887665432       2378888899999999999888887666543

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK10536 hypothetical protein; Provisional

Probab=98.10  E-value=2.9e-05  Score=65.63  Aligned_cols=121  Identities=19%  Similarity=0.163  Sum_probs=69.3

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc-CCCCCCceEEeecCCC-----C----C---
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL-GPNYREAVMELNASDD-----R----G---   89 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~-----~----~---   89 (331)
                      .+..+.+.......+..++.+..  .+++.||+|||||+++.+++.... ...  ...+.+..+..     .    |   
T Consensus        53 ~~~~i~p~n~~Q~~~l~al~~~~--lV~i~G~aGTGKT~La~a~a~~~l~~~~--~~kIiI~RP~v~~ge~LGfLPG~~~  128 (262)
T PRK10536         53 DTSPILARNEAQAHYLKAIESKQ--LIFATGEAGCGKTWISAAKAAEALIHKD--VDRIIVTRPVLQADEDLGFLPGDIA  128 (262)
T ss_pred             CCccccCCCHHHHHHHHHHhcCC--eEEEECCCCCCHHHHHHHHHHHHHhcCC--eeEEEEeCCCCCchhhhCcCCCCHH
Confidence            34456666666677777776643  589999999999999999998532 322  22222221110     0    0   


Q ss_pred             --h----HhHHHHHHHH---------H---h-----cccCCCCC---CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcE
Q 020071           90 --I----DVVRNKIKMF---------A---Q-----KKVTLPPG---KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTR  143 (331)
Q Consensus        90 --~----~~i~~~i~~~---------~---~-----~~~~~~~~---~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~  143 (331)
                        .    ..+.+.+...         .   .     .++....+   ...+|||||++.++......++   ...+.++.
T Consensus       129 eK~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~l---tR~g~~sk  205 (262)
T PRK10536        129 EKFAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFL---TRLGENVT  205 (262)
T ss_pred             HHHHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHH---hhcCCCCE
Confidence              0    1111111111         0   0     01111111   3579999999999986555555   45567888


Q ss_pred             EEEeeCC
Q 020071          144 FALACNV  150 (331)
Q Consensus       144 ~I~~~~~  150 (331)
                      +|++.+.
T Consensus       206 ~v~~GD~  212 (262)
T PRK10536        206 VIVNGDI  212 (262)
T ss_pred             EEEeCCh
Confidence            8888653

>PTZ00202 tuzin; Provisional

Probab=98.06  E-value=0.00028  Score=63.98  Aligned_cols=51  Identities=16%  Similarity=0.260  Sum_probs=43.2

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHcCCC--Ce-EEEeCCCCccHHHHHHHHHHHh
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARDGNM--PN-LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~~~~--~~-~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      -|....+++|++.....|...+.....  |. +.|.|++|+|||++++.+...+
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l  310 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE  310 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC
Confidence            466678999999999999999976433  33 5999999999999999999876

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.05  E-value=0.0017  Score=65.21  Aligned_cols=107  Identities=16%  Similarity=0.129  Sum_probs=75.0

Q ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHHHhc--C--CcEEEEeeCCCCCCChhhhcc--cceeeecCCCHHHHHHHHHHHH
Q 020071          110 GKHKVVVLDEADSMTAGAQQALRRTMEIYS--N--STRFALACNVSSKIIEPIQSR--CAIVRFSRLSDEEILSRLMVVV  183 (331)
Q Consensus       110 ~~~~vviide~d~l~~~~~~~Ll~~le~~~--~--~~~~I~~~~~~~~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~~  183 (331)
                      .++-|+|+||.|.....+.+-|..+|...+  .  ...+..+.+....+....++.  ...+.+.|++..+....+...+
T Consensus       153 ~~plVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l  232 (849)
T COG3899         153 EHPLVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATL  232 (849)
T ss_pred             cCCeEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHh
Confidence            347899999999999988888888887654  1  011111111122233333333  4678999999999999999987


Q ss_pred             HhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh
Q 020071          184 QEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY  217 (331)
Q Consensus       184 ~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~  217 (331)
                      ... .....+..+.+.+.+.|||--+-+.++.+.
T Consensus       233 ~~~-~~~~~p~~~~i~~kt~GnPfFi~e~lk~l~  265 (849)
T COG3899         233 GCT-KLLPAPLLELIFEKTKGNPFFIEEFLKALY  265 (849)
T ss_pred             CCc-ccccchHHHHHHHHhcCCCccHHHHHHHHH
Confidence            653 345677889999999999988888777654

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

Probab=98.05  E-value=5.5e-05  Score=77.46  Aligned_cols=150  Identities=19%  Similarity=0.229  Sum_probs=98.0

Q ss_pred             HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHH-----------HHHhcc
Q 020071           36 RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIK-----------MFAQKK  104 (331)
Q Consensus        36 ~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~-----------~~~~~~  104 (331)
                      ++.+++.-++  .+++.|.||+|||+++.++|+..     +..++.+|.++..   .+.+++.           .+...|
T Consensus      1535 rVlRAmqv~k--pilLEGsPGVGKTSlItaLAr~t-----G~kliRINLSeQT---dL~DLfGsd~Pve~~Gef~w~dap 1604 (4600)
T COG5271        1535 RVLRAMQVGK--PILLEGSPGVGKTSLITALARKT-----GKKLIRINLSEQT---DLCDLFGSDLPVEEGGEFRWMDAP 1604 (4600)
T ss_pred             HHHHHHhcCC--ceeecCCCCccHHHHHHHHHHHh-----cCceEEeeccccc---hHHHHhCCCCCcccCceeEecccH
Confidence            4444444444  48999999999999999999998     6677777765431   1111110           011111


Q ss_pred             cCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH--------------hcCCcEEEEeeCC------CCCCChhhhcccce
Q 020071          105 VTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI--------------YSNSTRFALACNV------SSKIIEPIQSRCAI  164 (331)
Q Consensus       105 ~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~--------------~~~~~~~I~~~~~------~~~l~~~l~sr~~~  164 (331)
                      +--...++..|++||+...+....+.|...++.              .++++++..+-|+      ...+++.+..|+.+
T Consensus      1605 fL~amr~G~WVlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~nRFsv 1684 (4600)
T COG5271        1605 FLHAMRDGGWVLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLNRFSV 1684 (4600)
T ss_pred             HHHHhhcCCEEEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCCCcccCCHHHhhhhhe
Confidence            111134577999999999888887777777763              2345554444333      24689999999999


Q ss_pred             eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Q 020071          165 VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAII  199 (331)
Q Consensus       165 i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~  199 (331)
                      +.+..++.+++..+....    -..+.++-.-.++
T Consensus      1685 V~~d~lt~dDi~~Ia~~~----yp~v~~d~~~kii 1715 (4600)
T COG5271        1685 VKMDGLTTDDITHIANKM----YPQVNEDWRLKII 1715 (4600)
T ss_pred             EEecccccchHHHHHHhh----CCccChHHHHHHH
Confidence            999999999998876653    2245555444343

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=98.01  E-value=9.7e-06  Score=72.85  Aligned_cols=115  Identities=19%  Similarity=0.238  Sum_probs=68.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCC-CCCceEEeecCCC-------CChHhHHHHHHHHHhcccCCCCCCceEEEEeC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPN-YREAVMELNASDD-------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDE  119 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~-------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide  119 (331)
                      .++|||+.|+|||.+.-.+...+..+. ....|..+-..-.       ...+.+....+.+        ..+.+++.+||
T Consensus        64 GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~~~~l~~va~~l--------~~~~~lLcfDE  135 (362)
T PF03969_consen   64 GLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQVADEL--------AKESRLLCFDE  135 (362)
T ss_pred             eEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHHHHHH--------HhcCCEEEEee
Confidence            499999999999999999999886532 1222222110000       0111222222222        24567999999


Q ss_pred             CCCCCHHHHHHHHHHHHHh-cCCcEEEEeeCCCC-C-------------CChhhhcccceeeecCC
Q 020071          120 ADSMTAGAQQALRRTMEIY-SNSTRFALACNVSS-K-------------IIEPIQSRCAIVRFSRL  170 (331)
Q Consensus       120 ~d~l~~~~~~~Ll~~le~~-~~~~~~I~~~~~~~-~-------------l~~~l~sr~~~i~~~~~  170 (331)
                      ++--.....-.|-++++.. ..++++|.|+|.+. .             ..+.|+++|.++.+...
T Consensus       136 F~V~DiaDAmil~rLf~~l~~~gvvlVaTSN~~P~~Ly~~gl~r~~Flp~I~~l~~~~~vv~ld~~  201 (362)
T PF03969_consen  136 FQVTDIADAMILKRLFEALFKRGVVLVATSNRPPEDLYKNGLQRERFLPFIDLLKRRCDVVELDGG  201 (362)
T ss_pred             eeccchhHHHHHHHHHHHHHHCCCEEEecCCCChHHHcCCcccHHHHHHHHHHHHhceEEEEecCC
Confidence            9876554444444444432 35677888887642 1             23677889999888765

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PHA02624 large T antigen; Provisional

Probab=97.98  E-value=5e-05  Score=71.35  Aligned_cols=103  Identities=17%  Similarity=0.176  Sum_probs=65.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH---
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA---  125 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~---  125 (331)
                      ++|+||+|+|||+++.++++.+     +...+.+|++....        ..+.. +    -.+.+++++|++-.-.-   
T Consensus       434 il~~GPpnTGKTtf~~sLl~~L-----~G~vlsVNsPt~ks--------~FwL~-p----l~D~~~~l~dD~t~~~~~~~  495 (647)
T PHA02624        434 WLFKGPVNSGKTTLAAALLDLC-----GGKSLNVNCPPDKL--------NFELG-C----AIDQFMVVFEDVKGQPADNK  495 (647)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc-----CCeEEEeeCCcchh--------HHHhh-h----hhhceEEEeeeccccccccc
Confidence            7999999999999999999998     44456677555311        11111 1    24578999999842211   


Q ss_pred             --------HHHHHHHHHHHHh-cC------------Cc-EEEEeeCCCCCCChhhhccc-ceeeecCC
Q 020071          126 --------GAQQALRRTMEIY-SN------------ST-RFALACNVSSKIIEPIQSRC-AIVRFSRL  170 (331)
Q Consensus       126 --------~~~~~Ll~~le~~-~~------------~~-~~I~~~~~~~~l~~~l~sr~-~~i~~~~~  170 (331)
                              +...-|+.+|+.. +-            .+ +.|+|+ +...++.|++-|+ .++.|.+-
T Consensus       496 ~Lp~G~~~dNl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~-Ney~iP~T~~~Rf~~~~~F~~k  562 (647)
T PHA02624        496 DLPSGQGMNNLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTM-NEYLIPQTVKARFAKVLDFKPK  562 (647)
T ss_pred             cCCcccccchhhHHHhhcCCCCccccchhccCchhccCCCeEEee-cCcccchhHHHHHHHhcccccc
Confidence                    1125677777643 10            11 245555 5678889999996 45677543

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.96  E-value=6.4e-05  Score=59.19  Aligned_cols=108  Identities=18%  Similarity=0.217  Sum_probs=66.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC----------------------------CCChHh---HHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD----------------------------DRGIDV---VRNKI   97 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~----------------------------~~~~~~---i~~~i   97 (331)
                      +.+|+++|.|||++|..++-...+.+....++.+-...                            ....+.   .++..
T Consensus         5 i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~~~~   84 (159)
T cd00561           5 IQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAAEGW   84 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHHHHH
Confidence            67888889999999999988877665544444433221                            000111   11111


Q ss_pred             HHHHhcccCCCCCCceEEEEeCCCCCC---HHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhccc
Q 020071           98 KMFAQKKVTLPPGKHKVVVLDEADSMT---AGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRC  162 (331)
Q Consensus        98 ~~~~~~~~~~~~~~~~vviide~d~l~---~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~  162 (331)
                      +.+....   ..+.+.++|+||+...-   --..+.+++++++.|.++-+|+|..+   .++.+..++
T Consensus        85 ~~a~~~~---~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~---~p~~l~e~A  146 (159)
T cd00561          85 AFAKEAI---ASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRN---APKELIEAA  146 (159)
T ss_pred             HHHHHHH---hcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCC---CCHHHHHhC
Confidence            1111111   14678999999975441   12356788999999999999999876   344454444

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.95  E-value=5.5e-05  Score=60.06  Aligned_cols=24  Identities=42%  Similarity=0.682  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++++||+|+|||+++..++.....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~   25 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT   25 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHh
Confidence            689999999999999999988743

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.89  E-value=0.0014  Score=57.98  Aligned_cols=48  Identities=23%  Similarity=0.209  Sum_probs=37.7

Q ss_pred             eeeecCCCHHHHHHHHHHHHHhcCC---CCCHHHHHHHHHhcCCCHHHHHH
Q 020071          164 IVRFSRLSDEEILSRLMVVVQEEKV---PYVPEGLEAIIFTADGDMRQALN  211 (331)
Q Consensus       164 ~i~~~~~~~~~~~~~l~~~~~~~~~---~i~~~~~~~l~~~~~g~~r~~~~  211 (331)
                      .+.+++++.+|+..+++-.....-+   ..++...+.+...++||++.+.+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el~k  308 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPRELEK  308 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHhcc
Confidence            7899999999999999877654332   34566778888888999998753

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.89  E-value=0.00093  Score=56.30  Aligned_cols=131  Identities=15%  Similarity=0.141  Sum_probs=75.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC---------------CChHhHHH-------HHHHHHhccc
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD---------------RGIDVVRN-------KIKMFAQKKV  105 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---------------~~~~~i~~-------~i~~~~~~~~  105 (331)
                      .+++.|++|+|||+++..+...+...-  ..++.+.....               ...+.+..       .+........
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f--~~I~l~t~~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~k~~   92 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKF--DHIFLITPEYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIKKSP   92 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccC--CEEEEEecCCchhhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhhhhc
Confidence            389999999999999999988764321  11111111100               01111111       1222222111


Q ss_pred             CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-cCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHH
Q 020071          106 TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-SNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMV  181 (331)
Q Consensus       106 ~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~  181 (331)
                      .-....+.++|+||+..- .-..+.+..++-.. .-++.+|+++.....+++.+|+-+..+-+-+.+..++..+++.
T Consensus        93 ~~k~~~~~LiIlDD~~~~-~~k~~~l~~~~~~gRH~~is~i~l~Q~~~~lp~~iR~n~~y~i~~~~s~~dl~~i~~~  168 (241)
T PF04665_consen   93 QKKNNPRFLIILDDLGDK-KLKSKILRQFFNNGRHYNISIIFLSQSYFHLPPNIRSNIDYFIIFNNSKRDLENIYRN  168 (241)
T ss_pred             ccCCCCCeEEEEeCCCCc-hhhhHHHHHHHhcccccceEEEEEeeecccCCHHHhhcceEEEEecCcHHHHHHHHHh
Confidence            111234779999998541 12234466665532 3467788888888999999988877665446777777655554

This is thought to be an ATPase involved in viral DNA packaging [].

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.88  E-value=0.00011  Score=60.47  Aligned_cols=103  Identities=19%  Similarity=0.324  Sum_probs=57.0

Q ss_pred             Ce-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccC-C-----------------
Q 020071           47 PN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVT-L-----------------  107 (331)
Q Consensus        47 ~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~-~-----------------  107 (331)
                      |+ ++|.||+|+||||.+-.++..+...+....++..+.......++++..-+... .++. .                 
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~-vp~~~~~~~~~~~~~~~~~l~~~   79 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILG-VPFYVARTESDPAEIAREALEKF   79 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHT-EEEEESSTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhc-cccchhhcchhhHHHHHHHHHHH
Confidence            45 69999999999999999998876554444444444333222223222211111 0000 0                 


Q ss_pred             CCCCceEEEEeCCCCCCH--HHHHHHHHHHHHh-cCCcEEEEeeCC
Q 020071          108 PPGKHKVVVLDEADSMTA--GAQQALRRTMEIY-SNSTRFALACNV  150 (331)
Q Consensus       108 ~~~~~~vviide~d~l~~--~~~~~Ll~~le~~-~~~~~~I~~~~~  150 (331)
                      ...+..+|+||-+.+...  +..+.|.++++.. +..+.+++.++.
T Consensus        80 ~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~  125 (196)
T PF00448_consen   80 RKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATM  125 (196)
T ss_dssp             HHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGG
T ss_pred             hhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEeccc
Confidence            012356999999887763  3456777777654 445666665543

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.86  E-value=5.4e-05  Score=68.43  Aligned_cols=94  Identities=20%  Similarity=0.242  Sum_probs=55.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh--cCCCCCCceEEeecCCCCChHhHHHHHHHH----------------Hhcc--cCCC
Q 020071           49 LILAGPPGTGKTTSILALAHEL--LGPNYREAVMELNASDDRGIDVVRNKIKMF----------------AQKK--VTLP  108 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l--~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~----------------~~~~--~~~~  108 (331)
                      +++.|.||||||.+|..+++.+  ...+....++..|....   ..+++.+...                ....  ....
T Consensus         4 ~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~---~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   80 (352)
T PF09848_consen    4 ILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLR---NKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDKE   80 (352)
T ss_pred             EEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHH---HHHHHHHhhhcccchhhhhhhhhHHHHhhccccccc
Confidence            6999999999999999999998  44433333444443221   1122211111                1000  0011


Q ss_pred             CCCceEEEEeCCCCCCHH--------HHHHHHHHHHHhcCCcEEEEe
Q 020071          109 PGKHKVVVLDEADSMTAG--------AQQALRRTMEIYSNSTRFALA  147 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~--------~~~~Ll~~le~~~~~~~~I~~  147 (331)
                      .....+|||||+|++...        ..+.|..++..  ..+.+++.
T Consensus        81 ~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~--~kv~v~f~  125 (352)
T PF09848_consen   81 KNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKR--AKVVVFFY  125 (352)
T ss_pred             CCcCCEEEEehhHhhhhccccccccccHHHHHHHHhc--CCEEEEEE
Confidence            346789999999999872        24677777776  33444443

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.86  E-value=0.00024  Score=61.69  Aligned_cols=155  Identities=16%  Similarity=0.182  Sum_probs=82.9

Q ss_pred             cccCHHHHHHH----HHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH-----
Q 020071           27 IVGNLDAVARL----GIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI-----   97 (331)
Q Consensus        27 ~ig~~~~~~~l----~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i-----   97 (331)
                      +.|.......+    ++.+..|....+++.||.|+|||.+..........-+...-.+.+|+.-....-.+.++.     
T Consensus        26 l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~~  105 (408)
T KOG2228|consen   26 LFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQLAL  105 (408)
T ss_pred             eeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHHHH
Confidence            45655555444    444455766669999999999998877666552111122333455543221100111111     


Q ss_pred             --------------------HHHHhcccCCCCCCceEEEEeCCCCCCHHH-HHHHHHHHHH---hcCCcEEEEeeCCC--
Q 020071           98 --------------------KMFAQKKVTLPPGKHKVVVLDEADSMTAGA-QQALRRTMEI---YSNSTRFALACNVS--  151 (331)
Q Consensus        98 --------------------~~~~~~~~~~~~~~~~vviide~d~l~~~~-~~~Ll~~le~---~~~~~~~I~~~~~~--  151 (331)
                                          .......  ...+..-++|+||+|.+.+.. |--|.++++-   ...-+.+|.+|...  
T Consensus       106 e~~~~~k~~gsfte~l~~lL~~L~~~~--~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~  183 (408)
T KOG2228|consen  106 ELNRIVKSFGSFTENLSKLLEALKKGD--ETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDI  183 (408)
T ss_pred             HHhhhheeecccchhHHHHHHHHhcCC--CCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccH
Confidence                                1000000  002234566777899886544 4445566652   22334555555443  


Q ss_pred             -CCCChhhhcccc---eeeecCCCHHHHHHHHHHHH
Q 020071          152 -SKIIEPIQSRCA---IVRFSRLSDEEILSRLMVVV  183 (331)
Q Consensus       152 -~~l~~~l~sr~~---~i~~~~~~~~~~~~~l~~~~  183 (331)
                       +.+-+..+||+.   ++-+++.+-++...++++..
T Consensus       184 lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  184 LELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             HHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence             456688899973   34555566677777777654

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.84  E-value=0.00013  Score=58.90  Aligned_cols=30  Identities=50%  Similarity=0.680  Sum_probs=25.8

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCC
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYR   76 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~   76 (331)
                      |-++|+|+||+|||++|+.+++.+..+.+.
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~~   31 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIWR   31 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhhh
Confidence            457999999999999999999999765443

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=97.82  E-value=5.1e-05  Score=63.19  Aligned_cols=71  Identities=24%  Similarity=0.325  Sum_probs=40.5

Q ss_pred             Ce-EEEeCCCCccHHHHHHHHHHHhc--C-CC--------CCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceE
Q 020071           47 PN-LILAGPPGTGKTTSILALAHELL--G-PN--------YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKV  114 (331)
Q Consensus        47 ~~-~ll~G~~G~GKt~la~~l~~~l~--~-~~--------~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~v  114 (331)
                      |+ ++|||+||+|||++|+.++....  . ..        ...+++.++..  ...+.+.+.+......     ..++.+
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~~~~~~~~d~~~~~l~g~~~~~v~~~d~~--~~~~~~~d~l~~~~~~-----~~~ydt   84 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPGKTLVLSFDMSSKVLIGDENVDIADHDDM--PPIQAMVEFYVMQNIQ-----AVKYDN   84 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCCCCEEEeccccchhccCCCCCceeecCCC--CCHHHHHHHHHHHHhc-----cccCCE
Confidence            44 79999999999999999864211  0 00        11122222111  1223444444432221     456899


Q ss_pred             EEEeCCCCCC
Q 020071          115 VVLDEADSMT  124 (331)
Q Consensus       115 viide~d~l~  124 (331)
                      ||||+++.+.
T Consensus        85 VVIDsI~~l~   94 (220)
T TIGR01618        85 IVIDNISALQ   94 (220)
T ss_pred             EEEecHHHHH
Confidence            9999987763

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>KOG1808 consensus AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.80  E-value=0.00014  Score=76.07  Aligned_cols=142  Identities=20%  Similarity=0.338  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccC---CC-
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVT---LP-  108 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~---~~-  108 (331)
                      ....+..+...|+.| ++|-||.|+|||+++..+++..     +.+++.++.....   +.++.+..+......   +. 
T Consensus       428 ~la~~~~a~~~~~~p-illqG~tssGKtsii~~la~~~-----g~~~vrinnheht---d~qeyig~y~~~~~g~l~fre  498 (1856)
T KOG1808|consen  428 NLADLARAISSGKFP-ILLQGPTSSGKTSIIKELARAT-----GKNIVRINNHEHT---DLQEYIGTYVADDNGDLVFRE  498 (1856)
T ss_pred             HHHHHHHHHhcCCCC-eEEecCcCcCchhHHHHHHHHh-----ccCceehhccccc---hHHHHHHhhhcCCCCCeeeeh
Confidence            344566777778776 9999999999999999999998     6677777654331   334444322221110   00 


Q ss_pred             ------CCCceEEEEeCCCCCCHHHHHHHHHHHHH-----hcCCcEEE--------EeeCCC-------CCCChhhhccc
Q 020071          109 ------PGKHKVVVLDEADSMTAGAQQALRRTMEI-----YSNSTRFA--------LACNVS-------SKIIEPIQSRC  162 (331)
Q Consensus       109 ------~~~~~vviide~d~l~~~~~~~Ll~~le~-----~~~~~~~I--------~~~~~~-------~~l~~~l~sr~  162 (331)
                            .-++..+|+|+++..+.+..++|.++++.     .|.+++++        +.+.++       ..+..++++|+
T Consensus       499 g~LV~Alr~G~~~vlD~lnla~~dvL~aLnrllddnRel~ipe~~rlv~~h~~f~lfatqn~~~~y~grk~lsRa~~~rf  578 (1856)
T KOG1808|consen  499 GVLVQALRNGDWIVLDELNLAPHDVLEALNRLLDDNRELFIPETQRLVKAHPEFMLFATQNPPGTYGGRKILSRALRNRF  578 (1856)
T ss_pred             hHHHHHHHhCCEEEeccccccchHHHHHHHhhhhhhccccccccceeeccCcchhhhhhccCccccchhhhhhhcccccc
Confidence                  12467999999999999999999999986     22333322        222222       23457778888


Q ss_pred             ceeeecCCCHHHHHHHHHHHH
Q 020071          163 AIVRFSRLSDEEILSRLMVVV  183 (331)
Q Consensus       163 ~~i~~~~~~~~~~~~~l~~~~  183 (331)
                      ..++|.-.+++++..++..++
T Consensus       579 ~e~~f~~~~e~e~~~i~~~~~  599 (1856)
T KOG1808|consen  579 IELHFDDIGEEELEEILEHRC  599 (1856)
T ss_pred             hhhhhhhcCchhhhhhhcccc
Confidence            889999999999998888765

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=97.80  E-value=0.00015  Score=58.81  Aligned_cols=44  Identities=32%  Similarity=0.376  Sum_probs=35.2

Q ss_pred             cCHHHHHHHHHHHHcC-CCCeEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           29 GNLDAVARLGIIARDG-NMPNLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~-~~~~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .|.+++..+.+.+... ..++++|.+|+|+|||.++..++..+..
T Consensus         7 ~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~   51 (184)
T PF04851_consen    7 YQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR   51 (184)
T ss_dssp             HHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc
Confidence            3667777888888776 5567999999999999999987777643

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>PRK13695 putative NTPase; Provisional

Probab=97.78  E-value=0.00046  Score=55.71  Aligned_cols=71  Identities=11%  Similarity=0.229  Sum_probs=47.3

Q ss_pred             CCceEEEEeCCCCC---CHHHHHHHHHHHHHhcCCcEEEEeeCCC--CCCChhhhcc--cceeeecCCCHHHHHHHHHHH
Q 020071          110 GKHKVVVLDEADSM---TAGAQQALRRTMEIYSNSTRFALACNVS--SKIIEPIQSR--CAIVRFSRLSDEEILSRLMVV  182 (331)
Q Consensus       110 ~~~~vviide~d~l---~~~~~~~Ll~~le~~~~~~~~I~~~~~~--~~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~~  182 (331)
                      .+..++++||+..+   .....+.+...++.   ...+|+++++.  ..+.+.+.++  +.++.+.+-+.+++...+..+
T Consensus        95 ~~~~~lllDE~~~~e~~~~~~~~~l~~~~~~---~~~~i~v~h~~~~~~~~~~i~~~~~~~i~~~~~~~r~~~~~~~~~~  171 (174)
T PRK13695         95 EEADVIIIDEIGKMELKSPKFVKAVEEVLDS---EKPVIATLHRRSVHPFVQEIKSRPGGRVYELTPENRDSLPFEILNR  171 (174)
T ss_pred             CCCCEEEEECCCcchhhhHHHHHHHHHHHhC---CCeEEEEECchhhHHHHHHHhccCCcEEEEEcchhhhhHHHHHHHH
Confidence            46789999997544   33445666666642   35677777753  2456677776  677888888888877776654


Q ss_pred             H
Q 020071          183 V  183 (331)
Q Consensus       183 ~  183 (331)
                      .
T Consensus       172 ~  172 (174)
T PRK13695        172 L  172 (174)
T ss_pred             H
Confidence            3

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.76  E-value=4.1e-05  Score=71.63  Aligned_cols=52  Identities=21%  Similarity=0.206  Sum_probs=41.9

Q ss_pred             CCCCCCccccCHHHHHHHHHHH----HcCC--CCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           20 RPTKVCDIVGNLDAVARLGIIA----RDGN--MPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l----~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +...|+|+.|.++.+.++...+    .+..  .+.++|.||||+|||++++.+++.+.
T Consensus        71 ry~fF~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le  128 (644)
T PRK15455         71 RYPAFEEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLME  128 (644)
T ss_pred             cccchhcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence            5567899999999999887776    3322  22379999999999999999999774

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.75  E-value=0.00012  Score=66.24  Aligned_cols=101  Identities=16%  Similarity=0.214  Sum_probs=55.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC----CCCCCceEEeecCCCCChHhHHHHHHHHHhcccC------------CCCCCc
Q 020071           49 LILAGPPGTGKTTSILALAHELLG----PNYREAVMELNASDDRGIDVVRNKIKMFAQKKVT------------LPPGKH  112 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~----~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~------------~~~~~~  112 (331)
                      ++|+||+|+||||++..++..+..    .+....++.+++......+++....+.. ..++.            ....++
T Consensus       177 i~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~l-gvpv~~~~~~~~l~~~L~~~~~~  255 (388)
T PRK12723        177 FILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIM-GIPVKAIESFKDLKEEITQSKDF  255 (388)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcC-CcceEeeCcHHHHHHHHHHhCCC
Confidence            799999999999999999987642    1222333444332211111111110000 00000            002457


Q ss_pred             eEEEEeCCCCCCHHH--HHHHHHHHHHh--cCCcEEEEeeCC
Q 020071          113 KVVVLDEADSMTAGA--QQALRRTMEIY--SNSTRFALACNV  150 (331)
Q Consensus       113 ~vviide~d~l~~~~--~~~Ll~~le~~--~~~~~~I~~~~~  150 (331)
                      .+|+||.+.+...+.  ...+.++++..  +..+.+++.++.
T Consensus       256 DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~  297 (388)
T PRK12723        256 DLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTT  297 (388)
T ss_pred             CEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCC
Confidence            899999999987543  35666676643  234566665544

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.71  E-value=0.00015  Score=59.64  Aligned_cols=100  Identities=22%  Similarity=0.375  Sum_probs=48.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC----CCC-------------hHhHHHHHHH---------HH
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD----DRG-------------IDVVRNKIKM---------FA  101 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~----~~~-------------~~~i~~~i~~---------~~  101 (331)
                      .+++.||+|||||.+|.+.+..+..++....++...+.-    ..+             ...+.+.+..         ..
T Consensus        21 ~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~p~~d~l~~~~~~~~~~~~~  100 (205)
T PF02562_consen   21 LVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLRPIYDALEELFGKEKLEELI  100 (205)
T ss_dssp             EEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTHHHHHHHTTTS-TTCHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHHHHHHHHHHHhChHhHHHHh
Confidence            479999999999999999997665433222222221110    000             0111111111         11


Q ss_pred             h------cccCCCCC---CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          102 Q------KKVTLPPG---KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       102 ~------~~~~~~~~---~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .      .+..+-.+   ...+|||||++.++++   .+..++...+.++.+|++.+.
T Consensus       101 ~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~---~~k~ilTR~g~~skii~~GD~  155 (205)
T PF02562_consen  101 QNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPE---ELKMILTRIGEGSKIIITGDP  155 (205)
T ss_dssp             HTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HH---HHHHHHTTB-TT-EEEEEE--
T ss_pred             hcCeEEEEehhhhcCccccceEEEEecccCCCHH---HHHHHHcccCCCcEEEEecCc
Confidence            0      01111112   3579999999999875   455566677788999998754

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.71  E-value=0.00054  Score=54.62  Aligned_cols=107  Identities=14%  Similarity=0.196  Sum_probs=66.1

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC-CCC-------------------------h----HhHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD-DRG-------------------------I----DVVRNKI   97 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~-~~~-------------------------~----~~i~~~i   97 (331)
                      -+.+|+++|.|||++|..++-...+.+...-++.+-... ..+                         .    ...++..
T Consensus         7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~   86 (173)
T TIGR00708         7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAAW   86 (173)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHHH
Confidence            378888899999999999998877654443333222111 000                         0    1112222


Q ss_pred             HHHHhcccCCCCCCceEEEEeCCC------CCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccc
Q 020071           98 KMFAQKKVTLPPGKHKVVVLDEAD------SMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCA  163 (331)
Q Consensus        98 ~~~~~~~~~~~~~~~~vviide~d------~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~  163 (331)
                      +.+.....   .+++.+||+||+-      .++.   +.++++++..|+++-+|+|..+.   ++.+...+.
T Consensus        87 ~~a~~~l~---~~~~DlvVLDEi~~A~~~gli~~---~~v~~lL~~rp~~~evVlTGR~~---p~~l~e~AD  149 (173)
T TIGR00708        87 QHAKEMLA---DPELDLVLLDELTYALKYGYLDV---EEVVEALQERPGHQHVIITGRGC---PQDLLELAD  149 (173)
T ss_pred             HHHHHHHh---cCCCCEEEehhhHHHHHCCCcCH---HHHHHHHHhCCCCCEEEEECCCC---CHHHHHhCc
Confidence            22222221   4678999999975      4444   46788899999999999998754   445555543

Alternate name: corrinoid adenosyltransferase.

>PRK14532 adenylate kinase; Provisional

Probab=97.70  E-value=0.0013  Score=53.85  Aligned_cols=23  Identities=52%  Similarity=0.728  Sum_probs=21.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++++.|+||+||||+++.+++.+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            47999999999999999999987

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.70  E-value=0.00013  Score=55.91  Aligned_cols=25  Identities=44%  Similarity=0.671  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +++++||+|+|||..+..++..+..
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~   26 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLD   26 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHh
Confidence            5899999999999999888887754

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.69  E-value=0.00035  Score=62.14  Aligned_cols=84  Identities=25%  Similarity=0.359  Sum_probs=48.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC--ChHhHHHHHHH--------------------HHhcccC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR--GIDVVRNKIKM--------------------FAQKKVT  106 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--~~~~i~~~i~~--------------------~~~~~~~  106 (331)
                      ++|+|++|+||||++..++..+...+.  .+..+++...+  ..+++......                    .....  
T Consensus       143 i~~~G~~GvGKTTtiakLA~~l~~~g~--~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~--  218 (336)
T PRK14974        143 IVFVGVNGTGKTTTIAKLAYYLKKNGF--SVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHA--  218 (336)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCC--eEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHH--
Confidence            699999999999999999987754322  33333332211  11222211111                    00000  


Q ss_pred             CCCCCceEEEEeCCCCCC--HHHHHHHHHHHHH
Q 020071          107 LPPGKHKVVVLDEADSMT--AGAQQALRRTMEI  137 (331)
Q Consensus       107 ~~~~~~~vviide~d~l~--~~~~~~Ll~~le~  137 (331)
                       ...++.+|+||.+.++.  ....+.|.++.+.
T Consensus       219 -~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~  250 (336)
T PRK14974        219 -KARGIDVVLIDTAGRMHTDANLMDELKKIVRV  250 (336)
T ss_pred             -HhCCCCEEEEECCCccCCcHHHHHHHHHHHHh
Confidence             01245699999999885  4456677666653

>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]

Probab=97.68  E-value=0.00026  Score=65.52  Aligned_cols=134  Identities=17%  Similarity=0.203  Sum_probs=85.8

Q ss_pred             ccccCHHHHHHHHHHHHcC-------------CCCeEEEeCCCCccHHHHHHHHHHHhcC----CCCCCceEEeecCCCC
Q 020071           26 DIVGNLDAVARLGIIARDG-------------NMPNLILAGPPGTGKTTSILALAHELLG----PNYREAVMELNASDDR   88 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~-------------~~~~~ll~G~~G~GKt~la~~l~~~l~~----~~~~~~~~~~~~~~~~   88 (331)
                      .|.||+.+++.+.-++-+|             .+ ++|+.|.|.+.|+.+.+.+.+....    .+.+..-+-+.+.-..
T Consensus       302 SI~GH~~vKkAillLLlGGvEk~L~NGshlRGDI-NiLlvGDPSvAKSQLLRyVLntAplAI~TTGRGSSGVGLTAAVTt  380 (818)
T KOG0479|consen  302 SIYGHDYVKKAILLLLLGGVEKNLENGSHLRGDI-NILLVGDPSVAKSQLLRYVLNTAPLAIATTGRGSSGVGLTAAVTT  380 (818)
T ss_pred             ccccHHHHHHHHHHHHhccceeccCCCceeccce-eEEEecCchHHHHHHHHHHHhcccccccccCCCCCCccceeEEee
Confidence            5779999998776665543             22 3899999999999999999886531    1111111111111000


Q ss_pred             ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeCCCC---
Q 020071           89 GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACNVSS---  152 (331)
Q Consensus        89 ~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~~~~---  152 (331)
                      ..+.-...++ +...    --++++||.|||+|+|+.-..-++.++||..             ...|.++.++|...   
T Consensus       381 D~eTGERRLE-AGAM----VLADRGVVCIDEFDKMsDiDRvAIHEVMEQqtVTIaKAGIHasLNARCSVlAAANPvyG~Y  455 (818)
T KOG0479|consen  381 DQETGERRLE-AGAM----VLADRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTIAKAGIHASLNARCSVLAAANPVYGQY  455 (818)
T ss_pred             ccccchhhhh-cCce----EEccCceEEehhcccccchhHHHHHHHHhcceEEeEeccchhhhccceeeeeecCcccccc
Confidence            0011111111 1111    1467899999999999999899999999942             36778888888631   


Q ss_pred             ----------CCChhhhccccee
Q 020071          153 ----------KIIEPIQSRCAIV  165 (331)
Q Consensus       153 ----------~l~~~l~sr~~~i  165 (331)
                                .++..+.|||..+
T Consensus       456 d~~k~P~eNIgLpDSLLSRFDLl  478 (818)
T KOG0479|consen  456 DQSKTPMENIGLPDSLLSRFDLL  478 (818)
T ss_pred             CCCCChhhccCCcHHHHhhhcEE
Confidence                      4778999998553

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.66  E-value=4.4e-05  Score=59.44  Aligned_cols=22  Identities=55%  Similarity=0.921  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++++|+||+||||+|+.+++.+
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
Confidence            5899999999999999999887

...

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.63  E-value=0.00036  Score=55.78  Aligned_cols=61  Identities=15%  Similarity=0.212  Sum_probs=42.8

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRL  170 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~  170 (331)
                      .++.+++-||. ..+.++....+++++++.+....-|+.++....+..+.+.|+..++-..+
T Consensus       154 ~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~~rvl~l~~Grl  215 (223)
T COG2884         154 NQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMRHRVLALEDGRL  215 (223)
T ss_pred             cCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhccCcEEEEeCCEE
Confidence            45789999996 67888889999999998765333333444556666777778766654433

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=97.63  E-value=0.00064  Score=67.05  Aligned_cols=114  Identities=18%  Similarity=0.188  Sum_probs=64.4

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH-----------hHHHHHH
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID-----------VVRNKIK   98 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~-----------~i~~~i~   98 (331)
                      .+.....+.....+   +.+++.|+||||||++++.+.+.+...+....++-+.++ .....           .+...+.
T Consensus       325 ~~~Q~~Ai~~~~~~---~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApT-g~AA~~L~e~~g~~a~Tih~lL~  400 (720)
T TIGR01448       325 SEEQKQALDTAIQH---KVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPT-GRAAKRLGEVTGLTASTIHRLLG  400 (720)
T ss_pred             CHHHHHHHHHHHhC---CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCc-hHHHHHHHHhcCCccccHHHHhh
Confidence            44444555554432   237999999999999999998877543211223322221 11111           2222221


Q ss_pred             HHHhc-ccC--CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071           99 MFAQK-KVT--LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus        99 ~~~~~-~~~--~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..... ...  .......++||||+..++......|++.+   +.++++|++...
T Consensus       401 ~~~~~~~~~~~~~~~~~~llIvDEaSMvd~~~~~~Ll~~~---~~~~rlilvGD~  452 (720)
T TIGR01448       401 YGPDTFRHNHLEDPIDCDLLIVDESSMMDTWLALSLLAAL---PDHARLLLVGDT  452 (720)
T ss_pred             ccCCccchhhhhccccCCEEEEeccccCCHHHHHHHHHhC---CCCCEEEEECcc
Confidence            10000 000  00134679999999999988777777654   467889988743

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.61  E-value=0.0014  Score=53.30  Aligned_cols=22  Identities=27%  Similarity=0.591  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|+||+||||+++.+++.+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            5899999999999999999988

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.60  E-value=0.00059  Score=56.12  Aligned_cols=99  Identities=23%  Similarity=0.287  Sum_probs=65.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQ  128 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~  128 (331)
                      ++|.|+.|+|||++.+.+...+..+.       +...  ...+..    ...         .+.-++.+||++.+++...
T Consensus        55 lvl~G~QG~GKStf~~~L~~~~~~d~-------~~~~--~~kd~~----~~l---------~~~~iveldEl~~~~k~~~  112 (198)
T PF05272_consen   55 LVLVGKQGIGKSTFFRKLGPEYFSDS-------INDF--DDKDFL----EQL---------QGKWIVELDELDGLSKKDV  112 (198)
T ss_pred             eeEecCCcccHHHHHHHHhHHhccCc-------cccC--CCcHHH----HHH---------HHhHheeHHHHhhcchhhH
Confidence            59999999999999999966542211       1111  111111    111         1245899999999998888


Q ss_pred             HHHHHHHHH---------------hcCCcEEEEeeCCCCCCC-hhhhcccceeeecC
Q 020071          129 QALRRTMEI---------------YSNSTRFALACNVSSKII-EPIQSRCAIVRFSR  169 (331)
Q Consensus       129 ~~Ll~~le~---------------~~~~~~~I~~~~~~~~l~-~~l~sr~~~i~~~~  169 (331)
                      +.|..++..               .+..++||.++|...-+. ++=-+|+.++.+..
T Consensus       113 ~~lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~~~L~D~TGnRRf~~v~v~~  169 (198)
T PF05272_consen  113 EALKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDDDFLKDPTGNRRFWPVEVSK  169 (198)
T ss_pred             HHHHHHhcccceeeecCCcCcceeeceeEEEEeccCCcceeeCCCCCeEEEEEEEcC
Confidence            888888752               345667888888866443 45556787777765

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.59  E-value=6.5e-05  Score=56.65  Aligned_cols=29  Identities=41%  Similarity=0.746  Sum_probs=24.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      +++.|++|+||||+++.+++.+     +..++.+
T Consensus         2 I~I~G~~gsGKST~a~~La~~~-----~~~~i~~   30 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERL-----GFPVISM   30 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH-----TCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHH-----CCeEEEe
Confidence            6899999999999999999998     5555443

...

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=97.59  E-value=0.001  Score=55.41  Aligned_cols=53  Identities=17%  Similarity=0.238  Sum_probs=40.8

Q ss_pred             CCceEEEEeC-CCCCCHHHHHHHHHHHHHh---cCCcEEEEeeCCCCCCChhhhccc
Q 020071          110 GKHKVVVLDE-ADSMTAGAQQALRRTMEIY---SNSTRFALACNVSSKIIEPIQSRC  162 (331)
Q Consensus       110 ~~~~vviide-~d~l~~~~~~~Ll~~le~~---~~~~~~I~~~~~~~~l~~~l~sr~  162 (331)
                      ..+.++|+|| ++.+.....+.|++++++.   +....+|++|...+.+++-+..+.
T Consensus       188 ~~P~LLiLDEP~~GLDl~~re~ll~~l~~~~~~~~~~~ll~VtHh~eEi~~~~th~l  244 (257)
T COG1119         188 KDPELLILDEPAQGLDLIAREQLLNRLEELAASPGAPALLFVTHHAEEIPPCFTHRL  244 (257)
T ss_pred             cCCCEEEecCccccCChHHHHHHHHHHHHHhcCCCCceEEEEEcchhhcccccceEE
Confidence            4688999999 5777777888888888753   335678888999888888775543

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=97.59  E-value=0.001  Score=56.98  Aligned_cols=178  Identities=16%  Similarity=0.167  Sum_probs=99.7

Q ss_pred             CCCccccCHHH---HHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC------------
Q 020071           23 KVCDIVGNLDA---VARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD------------   87 (331)
Q Consensus        23 ~~~~~ig~~~~---~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~------------   87 (331)
                      ...++++-...   +..+...-+.|.  ...+||.+|.|||+.++.+++...    ..-.++.++...            
T Consensus        70 ~~~~~l~tkt~r~~~~~~~~A~k~g~--l~~vyg~~g~gKt~a~~~y~~s~p----~~~l~~~~p~~~a~~~i~~i~~~~  143 (297)
T COG2842          70 LAPDFLETKTVRRIFFRTRPASKTGS--LVVVYGYAGLGKTQAAKNYAPSNP----NALLIEADPSYTALVLILIICAAA  143 (297)
T ss_pred             ccccccccchhHhHhhhhhhhhhcCc--eEEEeccccchhHHHHHhhcccCc----cceeecCChhhHHHHHHHHHHHHH
Confidence            55567776554   344444445555  379999999999999999998652    111122221110            


Q ss_pred             --CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC--------CCCChh
Q 020071           88 --RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS--------SKIIEP  157 (331)
Q Consensus        88 --~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~--------~~l~~~  157 (331)
                        .....+.+.........    .+..+.+++||++.|...+.+.|.+..++.+-.  ++++.++.        +.....
T Consensus       144 ~~~~~~~~~d~~~~~~~~l----~~~~~~iivDEA~~L~~~ale~lr~i~d~~Gi~--~vLvG~prL~~~l~~~~~~~~r  217 (297)
T COG2842         144 FGATDGTINDLTERLMIRL----RDTVRLIIVDEADRLPYRALEELRRIHDKTGIG--VVLVGMPRLFKVLRRPEDELSR  217 (297)
T ss_pred             hcccchhHHHHHHHHHHHH----ccCcceeeeehhhccChHHHHHHHHHHHhhCce--EEEecChHHHhccccchHHHHH
Confidence              00012222222222222    456889999999999999999999999986644  44444332        111223


Q ss_pred             hhcccce---eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 020071          158 IQSRCAI---VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       158 l~sr~~~---i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~  216 (331)
                      +.+|..+   +.-.-++.+++..+......    ..++.....+....+|++|.+-..+...
T Consensus       218 l~srv~v~~~~~~~~~d~d~~~~~~~~~l~----~~~~~~v~~~~~~~~g~~~~L~~~l~~~  275 (297)
T COG2842         218 LYSRVRVGKLLGEKFPDADELAEIAALVLP----TEDELVLMQVIKETEGNIRRLDKILAGA  275 (297)
T ss_pred             HHHHhhhHhhhhhhhhhhHHHHHHHHhhCc----cchHHHHHHHHHhcchhHhHHHHHHhhh
Confidence            3333211   11111222344333333211    2456667777788889998887777543

>PRK06762 hypothetical protein; Provisional

Probab=97.58  E-value=0.0022  Score=51.23  Aligned_cols=22  Identities=41%  Similarity=0.632  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+|++|+||||+|+.+++.+
T Consensus         5 i~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          5 IIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6999999999999999999987

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.58  E-value=0.00095  Score=61.58  Aligned_cols=29  Identities=34%  Similarity=0.537  Sum_probs=24.5

Q ss_pred             Ce-EEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           47 PN-LILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        47 ~~-~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      |. ++|+|++|+||||++..++..+...+.
T Consensus        95 p~vI~lvG~~GsGKTTtaakLA~~L~~~g~  124 (437)
T PRK00771         95 PQTIMLVGLQGSGKTTTAAKLARYFKKKGL  124 (437)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHHcCC
Confidence            44 699999999999999999998865543

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.57  E-value=0.00093  Score=59.96  Aligned_cols=113  Identities=18%  Similarity=0.274  Sum_probs=66.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc--CCCCCCceEEeecCCCCChHhHHHHH-------------HHHHhcccCCCCCCce
Q 020071           49 LILAGPPGTGKTTSILALAHELL--GPNYREAVMELNASDDRGIDVVRNKI-------------KMFAQKKVTLPPGKHK  113 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~i~~~i-------------~~~~~~~~~~~~~~~~  113 (331)
                      +.|.||.|+||||..-.+|..+.  .......++..+.......+++..--             +++.....  ...++.
T Consensus       206 i~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~--~l~~~d  283 (407)
T COG1419         206 IALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIE--ALRDCD  283 (407)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHH--HhhcCC
Confidence            79999999999987777777665  34444455655554432223322110             11111000  034578


Q ss_pred             EEEEeCCCCCCH--HHHHHHHHHHHHh-cCCcEEEEeeCCCCCCChhhhcccc
Q 020071          114 VVVLDEADSMTA--GAQQALRRTMEIY-SNSTRFALACNVSSKIIEPIQSRCA  163 (331)
Q Consensus       114 vviide~d~l~~--~~~~~Ll~~le~~-~~~~~~I~~~~~~~~l~~~l~sr~~  163 (331)
                      +|+||=+.+-..  .....|..++... +..+.+++.++...+-...+..++.
T Consensus       284 ~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~  336 (407)
T COG1419         284 VILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFS  336 (407)
T ss_pred             EEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhc
Confidence            999998876543  3445666666533 4566777877776666666665543

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=97.56  E-value=0.00063  Score=65.25  Aligned_cols=37  Identities=22%  Similarity=0.274  Sum_probs=28.7

Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      +..+|||||+-.++......|++.+   +.++++|++...
T Consensus       259 ~~dvlIiDEaSMvd~~l~~~ll~al---~~~~rlIlvGD~  295 (586)
T TIGR01447       259 PLDVLVVDEASMVDLPLMAKLLKAL---PPNTKLILLGDK  295 (586)
T ss_pred             cccEEEEcccccCCHHHHHHHHHhc---CCCCEEEEECCh
Confidence            3569999999999887766666655   567899998754

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.55  E-value=0.00052  Score=62.30  Aligned_cols=43  Identities=23%  Similarity=0.264  Sum_probs=32.4

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      |.++...+.+.+......++++.|+.|+|||++.+++...+..
T Consensus         6 Q~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~   48 (364)
T PF05970_consen    6 QRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRS   48 (364)
T ss_pred             HHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhcc
Confidence            4455556666666544445899999999999999999998854

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=97.55  E-value=0.0025  Score=64.12  Aligned_cols=182  Identities=15%  Similarity=0.067  Sum_probs=105.9

Q ss_pred             ccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCc-eEEeecCCCCChHhHHHH-HHH------
Q 020071           28 VGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREA-VMELNASDDRGIDVVRNK-IKM------   99 (331)
Q Consensus        28 ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~-~~~~~~~~~~~~~~i~~~-i~~------   99 (331)
                      +|++..++.+...+.......+=+||..|+||||+++.+.+....-...++ ++.+.-+.......+.+. +..      
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~  240 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDE  240 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCc
Confidence            999999999999988877655899999999999999999998752111222 222222212111111111 110      


Q ss_pred             ---------HHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-c---CCcEEEEeeCCCCCCChhhhcccceee
Q 020071          100 ---------FAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-S---NSTRFALACNVSSKIIEPIQSRCAIVR  166 (331)
Q Consensus       100 ---------~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-~---~~~~~I~~~~~~~~l~~~l~sr~~~i~  166 (331)
                               ..........+++-++++||+=.=  ..    ++.+.-| |   .++.+++||.+.. +-.....+...++
T Consensus       241 ~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~--~d----w~~I~~~~p~~~~g~KvvlTTRs~~-V~~~~m~~~~~~~  313 (889)
T KOG4658|consen  241 EWEDKEEDELASKLLNLLEGKRFLLVLDDIWEE--VD----WDKIGVPFPSRENGSKVVLTTRSEE-VCGRAMGVDYPIE  313 (889)
T ss_pred             ccchhhHHHHHHHHHHHhccCceEEEEeccccc--cc----HHhcCCCCCCccCCeEEEEEeccHh-hhhccccCCcccc
Confidence                     000000111456789999987221  11    3333322 2   2378888886532 2112122355677


Q ss_pred             ecCCCHHHHHHHHHHHHHhcCCCC---CHHHHHHHHHhcCCCHHHHHHHHHHH
Q 020071          167 FSRLSDEEILSRLMVVVQEEKVPY---VPEGLEAIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       167 ~~~~~~~~~~~~l~~~~~~~~~~i---~~~~~~~l~~~~~g~~r~~~~~l~~~  216 (331)
                      ...+++++.-..+++.+......-   -++.++.+++.++|-|-.+..+-..+
T Consensus       314 v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~m  366 (889)
T KOG4658|consen  314 VECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLL  366 (889)
T ss_pred             ccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHh
Confidence            888888898888888765432221   25678888999998776544443433

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=97.55  E-value=0.00078  Score=54.54  Aligned_cols=101  Identities=16%  Similarity=0.167  Sum_probs=62.2

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC----------------------C------CC---hHhHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD----------------------D------RG---IDVVRNK   96 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~----------------------~------~~---~~~i~~~   96 (331)
                      .+++||++|.|||++|..++-...+.+....++.+--..                      .      ..   ....++.
T Consensus        24 ~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~~~~  103 (191)
T PRK05986         24 LLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAAAREG  103 (191)
T ss_pred             eEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHHHHHH
Confidence            489999999999999999988876654333223221111                      0      00   0111122


Q ss_pred             HHHHHhcccCCCCCCceEEEEeCCCCCCH---HHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           97 IKMFAQKKVTLPPGKHKVVVLDEADSMTA---GAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        97 i~~~~~~~~~~~~~~~~vviide~d~l~~---~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      .+.+....   ..+++.+||+||+-..-.   =..+.++++++..|+++-+|+|..+.
T Consensus       104 ~~~a~~~l---~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        104 WEEAKRML---ADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHH---hCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence            22222222   156789999999743311   12456888889999999999998753

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.54  E-value=0.00068  Score=56.48  Aligned_cols=46  Identities=22%  Similarity=0.333  Sum_probs=32.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI   97 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i   97 (331)
                      ++++||||+|||+++..++......  +..++.++... ...+.+.+..
T Consensus        15 ~~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~-~~~~rl~~~~   60 (209)
T TIGR02237        15 TQIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQIA   60 (209)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CCHHHHHHHH
Confidence            6999999999999999998876544  34566666654 3444444443

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria

Probab=97.53  E-value=0.0057  Score=55.80  Aligned_cols=92  Identities=22%  Similarity=0.264  Sum_probs=60.8

Q ss_pred             CceEEEEeCCCCCC--------HHHHHHHHHHHHHhc----CCcEEEEeeCCC------C--CCChhhhcc---------
Q 020071          111 KHKVVVLDEADSMT--------AGAQQALRRTMEIYS----NSTRFALACNVS------S--KIIEPIQSR---------  161 (331)
Q Consensus       111 ~~~vviide~d~l~--------~~~~~~Ll~~le~~~----~~~~~I~~~~~~------~--~l~~~l~sr---------  161 (331)
                      .+-+|++||++.+-        ...-+.|+.++++..    +++-++++.++.      .  .-.++|.+|         
T Consensus       239 ~GLlI~lDE~e~l~kl~~~~~R~~~ye~lr~lidd~~~G~~~gL~~~~~gTPef~eD~rrGv~sY~AL~~RL~~~~~~~~  318 (416)
T PF10923_consen  239 KGLLILLDELENLYKLRNDQAREKNYEALRQLIDDIDQGRAPGLYFVFAGTPEFFEDGRRGVYSYEALAQRLAEEFFADD  318 (416)
T ss_pred             CceEEEEechHHHHhcCChHHHHHHHHHHHHHHHHHhcCCCCceEEEEeeCHHHhhCccccccccHHHHHHHhccccccc
Confidence            45799999998662        234678888887643    466677776541      1  124666665         


Q ss_pred             ------cceeeecCCCHHHHHHHHHHHHHh------cCCCCCHHHHHHHHHhc
Q 020071          162 ------CAIVRFSRLSDEEILSRLMVVVQE------EKVPYVPEGLEAIIFTA  202 (331)
Q Consensus       162 ------~~~i~~~~~~~~~~~~~l~~~~~~------~~~~i~~~~~~~l~~~~  202 (331)
                            ..++.+.|++.+++...+.+...-      ....++++.+..+++.+
T Consensus       319 ~~~n~~~pvIrL~~l~~eel~~l~~klr~i~a~~~~~~~~v~d~~l~~~~~~~  371 (416)
T PF10923_consen  319 GFDNLRAPVIRLQPLTPEELLELLEKLRDIYAEAYGYESRVDDEELKAFAQHV  371 (416)
T ss_pred             cccCccCceecCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCHHHHHHHHHHH
Confidence                  345899999999998887776441      22456777777776554

Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.52  E-value=0.00057  Score=58.64  Aligned_cols=24  Identities=46%  Similarity=0.643  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++|+|+||+||||+|+.+++.+..
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            689999999999999999998843

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=97.52  E-value=0.00071  Score=55.16  Aligned_cols=41  Identities=20%  Similarity=0.389  Sum_probs=25.6

Q ss_pred             CceEEEEeCCCCCCH-HHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          111 KHKVVVLDEADSMTA-GAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       111 ~~~vviide~d~l~~-~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      +..++||||+|.+.. .....+..++...+....+++.+..+
T Consensus       129 ~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~  170 (201)
T smart00487      129 NVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATP  170 (201)
T ss_pred             HCCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCC
Confidence            345999999999986 44555555555444445555544444

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.50  E-value=0.0012  Score=56.98  Aligned_cols=35  Identities=34%  Similarity=0.497  Sum_probs=28.6

Q ss_pred             HHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           37 LGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        37 l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +....+.+...++++.||+|+||||+.+.++..+.
T Consensus       102 l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       102 LPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             HHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            34444566667899999999999999999999874

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=97.49  E-value=0.00052  Score=55.99  Aligned_cols=25  Identities=44%  Similarity=0.549  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ++++||||+|||+++..++......
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~   26 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLAR   26 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            6899999999999999988876433

A related protein is found in archaea.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=97.49  E-value=0.00091  Score=66.22  Aligned_cols=112  Identities=18%  Similarity=0.226  Sum_probs=65.9

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC--------CCh--HhHHHHHHH
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD--------RGI--DVVRNKIKM   99 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--------~~~--~~i~~~i~~   99 (331)
                      .+.....+...+.++.  .+++.|++|+|||++++.+...+...+  ..++-+.++..        .+.  ..+...+..
T Consensus       354 s~~Q~~Av~~i~~s~~--~~il~G~aGTGKTtll~~i~~~~~~~g--~~V~~~ApTg~Aa~~L~~~~g~~a~Ti~~~~~~  429 (744)
T TIGR02768       354 SEEQYEAVRHVTGSGD--IAVVVGRAGTGKSTMLKAAREAWEAAG--YRVIGAALSGKAAEGLQAESGIESRTLASLEYA  429 (744)
T ss_pred             CHHHHHHHHHHhcCCC--EEEEEecCCCCHHHHHHHHHHHHHhCC--CeEEEEeCcHHHHHHHHhccCCceeeHHHHHhh
Confidence            3455555555554432  369999999999999999988764432  23333322110        010  112222111


Q ss_pred             HHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          100 FAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       100 ~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      +....  ....+..++||||+..++......|++....  .++++|++..
T Consensus       430 ~~~~~--~~~~~~~llIvDEasMv~~~~~~~Ll~~~~~--~~~kliLVGD  475 (744)
T TIGR02768       430 WANGR--DLLSDKDVLVIDEAGMVGSRQMARVLKEAEE--AGAKVVLVGD  475 (744)
T ss_pred             hccCc--ccCCCCcEEEEECcccCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            11110  0124578999999999998887777776554  4577888763

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.44  E-value=0.00078  Score=56.98  Aligned_cols=25  Identities=28%  Similarity=0.385  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +++.|++|+|||+++..++..+..+
T Consensus        27 ~~i~G~~G~GKTtl~~~~~~~~~~~   51 (230)
T PRK08533         27 ILIEGDESTGKSILSQRLAYGFLQN   51 (230)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhC
Confidence            6999999999999987776655433

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.44  E-value=0.0013  Score=55.85  Aligned_cols=35  Identities=20%  Similarity=0.196  Sum_probs=26.2

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHh
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .|...+.+|-++.  ++++|++|+|||+++..++...
T Consensus        13 ~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~   49 (234)
T PRK06067         13 ELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGA   49 (234)
T ss_pred             HHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            3455555554333  6999999999999999997664

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.42  E-value=0.00016  Score=55.27  Aligned_cols=33  Identities=36%  Similarity=0.609  Sum_probs=27.7

Q ss_pred             CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           45 NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        45 ~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      ..|++|++|-||+|||+++..++..+     +..++.+
T Consensus         6 ~~PNILvtGTPG~GKstl~~~lae~~-----~~~~i~i   38 (176)
T KOG3347|consen    6 ERPNILVTGTPGTGKSTLAERLAEKT-----GLEYIEI   38 (176)
T ss_pred             cCCCEEEeCCCCCCchhHHHHHHHHh-----CCceEeh
Confidence            45789999999999999999999877     5555544

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=97.41  E-value=0.0011  Score=63.91  Aligned_cols=99  Identities=20%  Similarity=0.274  Sum_probs=56.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCC-CCceEEeecCCCCChHhHHHHHH------------------------HHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNY-REAVMELNASDDRGIDVVRNKIK------------------------MFAQK  103 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~i~~~i~------------------------~~~~~  103 (331)
                      .+++|+||||||+++..+...+..... ....+.+..+...-...+.+.+.                        .+...
T Consensus       170 ~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlLg~  249 (615)
T PRK10875        170 SVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLLGA  249 (615)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHhCc
Confidence            699999999999999998877643111 11123333322211112222111                        11111


Q ss_pred             -ccC----C---CCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          104 -KVT----L---PPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       104 -~~~----~---~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                       +..    .   ..-...++||||+-.+.......|++.+   ++++++|++.+.
T Consensus       250 ~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al---~~~~rlIlvGD~  301 (615)
T PRK10875        250 QPGSQRLRYHAGNPLHLDVLVVDEASMVDLPMMARLIDAL---PPHARVIFLGDR  301 (615)
T ss_pred             CCCccchhhccccCCCCCeEEEChHhcccHHHHHHHHHhc---ccCCEEEEecch
Confidence             000    0   0112369999999999877777777765   467899998754

>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species

Probab=97.41  E-value=0.0019  Score=57.54  Aligned_cols=112  Identities=21%  Similarity=0.325  Sum_probs=65.8

Q ss_pred             HHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe-ecCCCCChHhHHHHHHHHHhcccCCCCCC
Q 020071           34 VARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMEL-NASDDRGIDVVRNKIKMFAQKKVTLPPGK  111 (331)
Q Consensus        34 ~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~-~~~~~~~~~~i~~~i~~~~~~~~~~~~~~  111 (331)
                      +..++.++++-.-++ ++|||||++|||.++..+.+-+     +..++.+ |..+.            +--.|    -.+
T Consensus       249 l~~lk~~Lkg~PKKnClvi~GPPdTGKS~F~~SLi~Fl-----~GkViSf~Ns~Sh------------FWLqP----L~d  307 (432)
T PF00519_consen  249 LIALKQFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFL-----KGKVISFVNSKSH------------FWLQP----LAD  307 (432)
T ss_dssp             HHHHHHHHHTBTTSSEEEEESSCCCSHHHHHHHHHHHH-----TSEEE-GGGTTSC------------GGGGG----GCT
T ss_pred             HHHHHHHHhCCCcccEEEEECCCCCchhHHHHHHHHHh-----CCEEEEecCCCCc------------ccccc----hhc
Confidence            345666776533334 8999999999999999999988     4444432 32221            11122    356


Q ss_pred             ceEEEEeCCCCCCHHHHH----HHHHHHHHhcC-------------CcEEEEeeCCC---CCCChhhhcccceeeecC
Q 020071          112 HKVVVLDEADSMTAGAQQ----ALRRTMEIYSN-------------STRFALACNVS---SKIIEPIQSRCAIVRFSR  169 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~----~Ll~~le~~~~-------------~~~~I~~~~~~---~~l~~~l~sr~~~i~~~~  169 (331)
                      .++.+|||+-   ....+    -|++.++..+-             --++++++|..   +.-..-|.||...+.|+.
T Consensus       308 ~Ki~llDDAT---~~cW~Y~D~ylRNaLDGN~vsiD~KHkap~Qik~PPLlITsN~dv~~~~~~~YLhSRi~~f~F~n  382 (432)
T PF00519_consen  308 AKIALLDDAT---YPCWDYIDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKKDDRWKYLHSRITCFEFPN  382 (432)
T ss_dssp             -SSEEEEEE----HHHHHHHHHHTHHHHCTSEEEEEESSSEEEEEE---EEEEESS-TTTSCCCHHHCTTEEEEE--S
T ss_pred             CcEEEEcCCc---ccHHHHHHHHHHhccCCCeeeeeccCCCceEeecCceEEecCCCCCcchhhhhhhheEEEEEcCC
Confidence            8899999883   33333    24455553220             01366777642   344688999998887763

The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.41  E-value=0.0014  Score=60.59  Aligned_cols=96  Identities=19%  Similarity=0.282  Sum_probs=53.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc--CCCCCCceEEeecCCCC--ChHhHHHH----------------HHHHHhcccCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELL--GPNYREAVMELNASDDR--GIDVVRNK----------------IKMFAQKKVTLP  108 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~--~~~~i~~~----------------i~~~~~~~~~~~  108 (331)
                      ++|.||+|+||||++..++..+.  ..+  ..+..++.....  ..+++...                +......     
T Consensus       224 i~~vGptGvGKTTt~~kLA~~~~~~~~g--~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~-----  296 (424)
T PRK05703        224 VALVGPTGVGKTTTLAKLAARYALLYGK--KKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQ-----  296 (424)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCC--CeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHH-----
Confidence            79999999999999999988764  222  233333333221  11111110                0000000     


Q ss_pred             CCCceEEEEeCCCCCCH--HHHHHHHHHHHH--hcCCcEEEEeeCCC
Q 020071          109 PGKHKVVVLDEADSMTA--GAQQALRRTMEI--YSNSTRFALACNVS  151 (331)
Q Consensus       109 ~~~~~vviide~d~l~~--~~~~~Ll~~le~--~~~~~~~I~~~~~~  151 (331)
                      ..++.+|+||.+.+...  ...+.|..+++.  .+..+.+++.++..
T Consensus       297 ~~~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~  343 (424)
T PRK05703        297 LRDCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK  343 (424)
T ss_pred             hCCCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC
Confidence            23478999998876543  345667777762  23345566655443

>PRK08118 topology modulation protein; Reviewed

Probab=97.39  E-value=0.0002  Score=57.36  Aligned_cols=24  Identities=38%  Similarity=0.555  Sum_probs=22.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+++.||+|+||||+|+.+++.+.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~   26 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLN   26 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999999983

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=97.38  E-value=0.0031  Score=54.55  Aligned_cols=95  Identities=23%  Similarity=0.333  Sum_probs=50.7

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee-------cCC---CCChHhHHHHHHHHHhcccCCCCCCceEEE
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN-------ASD---DRGIDVVRNKIKMFAQKKVTLPPGKHKVVV  116 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~-------~~~---~~~~~~i~~~i~~~~~~~~~~~~~~~~vvi  116 (331)
                      |-++++|-||+|||++|+.+.+.+...+..  +..++       ...   .......+..+........    +...+||
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~--v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~l----s~~~iVI   75 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEKGKE--VVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERAL----SKDTIVI   75 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT----EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHH----TT-SEEE
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCCE--EEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhh----ccCeEEE
Confidence            557999999999999999999988654322  22222       111   1123345555555555443    3357999


Q ss_pred             EeCCCCCCHHHHHHHHHHHHHhcCCcEEEEee
Q 020071          117 LDEADSMTAGAQQALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus       117 ide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~  148 (331)
                      +|+..++ +.-.-.|..+-........+|.+.
T Consensus        76 ~Dd~nYi-Kg~RYelyclAr~~~~~~c~i~~~  106 (270)
T PF08433_consen   76 LDDNNYI-KGMRYELYCLARAYGTTFCVIYCD  106 (270)
T ss_dssp             E-S---S-HHHHHHHHHHHHHTT-EEEEEEEE
T ss_pred             EeCCchH-HHHHHHHHHHHHHcCCCEEEEEEC
Confidence            9988776 344556666665555444444443

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=97.38  E-value=0.0015  Score=64.53  Aligned_cols=157  Identities=17%  Similarity=0.199  Sum_probs=100.3

Q ss_pred             CCccccC-HHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC-----CceEEeecCC----CCChHhH
Q 020071           24 VCDIVGN-LDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYR-----EAVMELNASD----DRGIDVV   93 (331)
Q Consensus        24 ~~~~ig~-~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~-----~~~~~~~~~~----~~~~~~i   93 (331)
                      ++.++|+ ++.+++..+.+......|-+|.|++|+|||.++..+++.....+..     ..++.++...    .....++
T Consensus       185 ldPvigr~deeirRvi~iL~Rrtk~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aGa~~rge~  264 (898)
T KOG1051|consen  185 LDPVIGRHDEEIRRVIEILSRKTKNNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGAKRRGEF  264 (898)
T ss_pred             CCCccCCchHHHHHHHHHHhccCCCCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccCcccchHH
Confidence            5678887 8888888888877766668999999999999999999987643221     1233333221    1122345


Q ss_pred             HHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------HHHHHHHHHHHHhcCCcEEEEeeCCC-----CCCChhhhc
Q 020071           94 RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------GAQQALRRTMEIYSNSTRFALACNVS-----SKIIEPIQS  160 (331)
Q Consensus        94 ~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------~~~~~Ll~~le~~~~~~~~I~~~~~~-----~~l~~~l~s  160 (331)
                      ++.++......-.  .+++-|++|||++.+..        ++.+.|...+.. . ...+|.+|+..     -.-.|++.+
T Consensus       265 E~rlk~l~k~v~~--~~~gvILfigelh~lvg~g~~~~~~d~~nlLkp~L~r-g-~l~~IGatT~e~Y~k~iekdPalEr  340 (898)
T KOG1051|consen  265 EERLKELLKEVES--GGGGVILFLGELHWLVGSGSNYGAIDAANLLKPLLAR-G-GLWCIGATTLETYRKCIEKDPALER  340 (898)
T ss_pred             HHHHHHHHHHHhc--CCCcEEEEecceeeeecCCCcchHHHHHHhhHHHHhc-C-CeEEEecccHHHHHHHHhhCcchhh
Confidence            5555544443211  34578999999998843        223333333332 2 37778876542     134588999


Q ss_pred             ccceeeecCCCHHHHHHHHHHHHH
Q 020071          161 RCAIVRFSRLSDEEILSRLMVVVQ  184 (331)
Q Consensus       161 r~~~i~~~~~~~~~~~~~l~~~~~  184 (331)
                      |++.+.+.-|+..+...++.....
T Consensus       341 rw~l~~v~~pS~~~~~~iL~~l~~  364 (898)
T KOG1051|consen  341 RWQLVLVPIPSVENLSLILPGLSE  364 (898)
T ss_pred             CcceeEeccCcccchhhhhhhhhh
Confidence            999888888887766656555433

>cd01394 radB RadB

Probab=97.38  E-value=0.0029  Score=53.06  Aligned_cols=48  Identities=31%  Similarity=0.422  Sum_probs=33.7

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .|...+..|-.+.  ++++|+||+|||+++..++......  +..++.++..
T Consensus         7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e   56 (218)
T cd01394           7 GLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQ--GKKVAYIDTE   56 (218)
T ss_pred             HHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEECC
Confidence            3555555554433  6999999999999999999887544  3455556544

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>COG1485 Predicted ATPase [General function prediction only]

Probab=97.37  E-value=0.0022  Score=56.28  Aligned_cols=114  Identities=20%  Similarity=0.243  Sum_probs=64.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC-CCCceEEeecCC------CCCh-HhHHHHHHHHHhcccCCCCCCceEEEEeCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN-YREAVMELNASD------DRGI-DVVRNKIKMFAQKKVTLPPGKHKVVVLDEA  120 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~------~~~~-~~i~~~i~~~~~~~~~~~~~~~~vviide~  120 (331)
                      +++||+-|.|||.+.-.+...+..+. ....|..+-..-      ..|. +.+......+        .++.+|+.+||+
T Consensus        68 lYl~GgVGrGKT~LMD~Fy~~lp~~~k~R~HFh~FM~~vH~~l~~l~g~~dpl~~iA~~~--------~~~~~vLCfDEF  139 (367)
T COG1485          68 LYLWGGVGRGKTMLMDLFYESLPGERKRRLHFHRFMARVHQRLHTLQGQTDPLPPIADEL--------AAETRVLCFDEF  139 (367)
T ss_pred             EEEECCCCccHHHHHHHHHhhCCccccccccHHHHHHHHHHHHHHHcCCCCccHHHHHHH--------HhcCCEEEeeee
Confidence            89999999999999999999886543 111211110000      0000 1111111111        356889999999


Q ss_pred             CCCCHHHHHHHHHHHHHh-cCCcEEEEeeCCC-C----------CCC---hhhhcccceeeecCC
Q 020071          121 DSMTAGAQQALRRTMEIY-SNSTRFALACNVS-S----------KII---EPIQSRCAIVRFSRL  170 (331)
Q Consensus       121 d~l~~~~~~~Ll~~le~~-~~~~~~I~~~~~~-~----------~l~---~~l~sr~~~i~~~~~  170 (331)
                      +--.....-.|-++++.- ..++.++.|+|.. +          ..+   +.|+++|.++.+..+
T Consensus       140 ~VtDI~DAMiL~rL~~~Lf~~GV~lvaTSN~~P~~LY~dGlqR~~FLP~I~li~~~~~v~~vD~~  204 (367)
T COG1485         140 EVTDIADAMILGRLLEALFARGVVLVATSNTAPDNLYKDGLQRERFLPAIDLIKSHFEVVNVDGP  204 (367)
T ss_pred             eecChHHHHHHHHHHHHHHHCCcEEEEeCCCChHHhcccchhHHhhHHHHHHHHHheEEEEecCC
Confidence            766554444444555542 3466777777653 2          222   566788887655544

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.37  E-value=0.0011  Score=57.10  Aligned_cols=25  Identities=20%  Similarity=0.254  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ++++|+||+|||+++..++......
T Consensus        39 ~lI~G~pGtGKT~l~~qf~~~~a~~   63 (259)
T TIGR03878        39 INITGVSDTGKSLMVEQFAVTQASR   63 (259)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhC
Confidence            6999999999999999988765433

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK14528 adenylate kinase; Provisional

Probab=97.36  E-value=0.0061  Score=49.75  Aligned_cols=24  Identities=46%  Similarity=0.796  Sum_probs=22.0

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.+++.||||+|||++++.+++.+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999999887

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.34  E-value=0.0021  Score=57.89  Aligned_cols=26  Identities=38%  Similarity=0.726  Sum_probs=23.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      ++|.||.|+||||++..++..+...+
T Consensus       244 I~LVGptGvGKTTTiaKLA~~L~~~G  269 (436)
T PRK11889        244 IALIGPTGVGKTTTLAKMAWQFHGKK  269 (436)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcC
Confidence            79999999999999999999886543

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.34  E-value=0.0023  Score=53.95  Aligned_cols=48  Identities=29%  Similarity=0.382  Sum_probs=32.6

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .|.+.+.+|-.+.  ++++|+||+|||+++..++......  +..++.++..
T Consensus        11 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~--~~~v~yi~~e   60 (225)
T PRK09361         11 MLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKN--GKKVIYIDTE   60 (225)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEECC
Confidence            3455555554333  5999999999999999999876443  3344555544

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.33  E-value=0.00065  Score=53.32  Aligned_cols=22  Identities=41%  Similarity=0.608  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+|++|+||||+++.+++.+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            5899999999999999999986

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.33  E-value=0.0011  Score=52.96  Aligned_cols=98  Identities=14%  Similarity=0.175  Sum_probs=56.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC--h-HhHHH------------HHHHHHhcccCCCCCCc
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG--I-DVVRN------------KIKMFAQKKVTLPPGKH  112 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~-~~i~~------------~i~~~~~~~~~~~~~~~  112 (331)
                      .+.|.||+|+|||++.+.++.......   --+.++..+...  . +..+.            ..+-.....+   ..++
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~~~~~---G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~laral---~~~p  101 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLYKPDS---GEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARAL---ARNA  101 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCC---eEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHHH---hcCC
Confidence            479999999999999999987653211   112232211100  0 00000            0000011111   3457


Q ss_pred             eEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCcEEEEeeCCC
Q 020071          113 KVVVLDEA-DSMTAGAQQALRRTMEIYS-NSTRFALACNVS  151 (331)
Q Consensus       113 ~vviide~-d~l~~~~~~~Ll~~le~~~-~~~~~I~~~~~~  151 (331)
                      +++++||. ..+.......+.+.+.+.. .+..+|+++.+.
T Consensus       102 ~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~  142 (163)
T cd03216         102 RLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRL  142 (163)
T ss_pred             CEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCH
Confidence            89999996 4678888888888887653 245566666653

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PF14840 DNA_pol3_delt_C: Processivity clamp loader gamma complex DNA pol III C-term; PDB: 3GLG_F 1XXH_A 3GLF_F 1JQJ_C 3GLI_F

Probab=97.33  E-value=0.0044  Score=46.86  Aligned_cols=82  Identities=16%  Similarity=0.125  Sum_probs=63.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc--------c--------------------------cC
Q 020071          241 KNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY--------E--------------------------MA  286 (331)
Q Consensus       241 ~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~--------~--------------------------~~  286 (331)
                      |++++++..|+...+.+++..|...|++|..++..+.+-++.+        +                          ++
T Consensus         2 F~L~Da~L~G~~~ra~riL~~L~~Eg~ep~~lLw~L~rElr~L~~l~~~~~~~~l~~~~~~~rIW~~Rq~l~~~Al~Rls   81 (125)
T PF14840_consen    2 FQLIDALLAGDAKRALRILQGLQAEGVEPPILLWALQRELRLLIQLKQALAQQPLQQLFKQLRIWQKRQPLYQQALQRLS   81 (125)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHTTTS-HHHHHHHHTT-CCHHHHHHHHHHHS-
T ss_pred             CcHHHHHHCCCHHHHHHHHHHHHHCCccHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHcCCCHhHHHHHHHHHHcCC
Confidence            7899999999999999999999999999999998887633321        0                          22


Q ss_pred             hHhHHHHHHHHHHHHHHHhc--CCCchHHHHHHHHHHH
Q 020071          287 EHLKLEFMKEAGFAHMRICD--GVGSYLQLCGLLAKLS  322 (331)
Q Consensus       287 ~~~~~~~~~~l~~~~~~l~~--~~~~~l~l~~l~~~l~  322 (331)
                      .....+++..+...|..+|.  +.++...|+.+++.+|
T Consensus        82 ~~~L~~ll~~~a~iD~~iKg~~~~~~W~~L~~L~L~lc  119 (125)
T PF14840_consen   82 LQQLEQLLQLLAQIDRAIKGNYQGDPWDELEQLSLLLC  119 (125)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSTTSTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHc
Confidence            23335889999999999994  4588889999999887

>PRK13889 conjugal transfer relaxase TraA; Provisional

Probab=97.33  E-value=0.0022  Score=64.78  Aligned_cols=112  Identities=15%  Similarity=0.127  Sum_probs=65.7

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC--------CCh--HhHHHHHHH
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD--------RGI--DVVRNKIKM   99 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--------~~~--~~i~~~i~~   99 (331)
                      .+.....+...+.+..  .+++.|.+|+|||++.+.+.+.+...  +..++-+.++..        .++  ..+...+..
T Consensus       348 s~eQr~Av~~il~s~~--v~vv~G~AGTGKTT~l~~~~~~~e~~--G~~V~~~ApTGkAA~~L~e~tGi~a~TI~sll~~  423 (988)
T PRK13889        348 SGEQADALAHVTDGRD--LGVVVGYAGTGKSAMLGVAREAWEAA--GYEVRGAALSGIAAENLEGGSGIASRTIASLEHG  423 (988)
T ss_pred             CHHHHHHHHHHhcCCC--eEEEEeCCCCCHHHHHHHHHHHHHHc--CCeEEEecCcHHHHHHHhhccCcchhhHHHHHhh
Confidence            4445555555554433  36899999999999988887765433  222333322110        111  122222221


Q ss_pred             HHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          100 FAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       100 ~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      +....  .......++||||+..++......|++..+.  .++++|++..
T Consensus       424 ~~~~~--~~l~~~~vlIVDEASMv~~~~m~~LL~~a~~--~garvVLVGD  469 (988)
T PRK13889        424 WGQGR--DLLTSRDVLVIDEAGMVGTRQLERVLSHAAD--AGAKVVLVGD  469 (988)
T ss_pred             hcccc--cccccCcEEEEECcccCCHHHHHHHHHhhhh--CCCEEEEECC
Confidence            11111  0123567999999999998888888877664  4577888764

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=97.31  E-value=0.0026  Score=56.20  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|+||+||||+|+.+++.+
T Consensus         5 iil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          5 ILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHC
Confidence            6999999999999999999987

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.31  E-value=0.0038  Score=50.47  Aligned_cols=22  Identities=45%  Similarity=0.860  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||||+||||+|+.+++.+
T Consensus         3 iiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           3 ILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999986

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.31  E-value=0.0022  Score=51.45  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=21.2

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||++|..++..+
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            37999999999999999999886

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.29  E-value=0.0027  Score=50.21  Aligned_cols=95  Identities=17%  Similarity=0.260  Sum_probs=55.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-----------------CChHhHHHHHHHHHhcccCCCCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-----------------RGIDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-----------------~~~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      .+.|.|+.|+|||++.+.++..+...   .--+.++....                 .+..+. ..+.- . ..+   ..
T Consensus        27 ~~~i~G~nGsGKStll~~l~g~~~~~---~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~-~r~~l-~-~~l---~~   97 (157)
T cd00267          27 IVALVGPNGSGKSTLLRAIAGLLKPT---SGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQR-QRVAL-A-RAL---LL   97 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCC---ccEEEECCEEcccCCHHHHHhceEEEeeCCHHHH-HHHHH-H-HHH---hc
Confidence            37999999999999999998876421   11122322111                 000111 11111 1 111   23


Q ss_pred             CceEEEEeCCC-CCCHHHHHHHHHHHHHhcC-CcEEEEeeCCC
Q 020071          111 KHKVVVLDEAD-SMTAGAQQALRRTMEIYSN-STRFALACNVS  151 (331)
Q Consensus       111 ~~~vviide~d-~l~~~~~~~Ll~~le~~~~-~~~~I~~~~~~  151 (331)
                      +..++++||.. .+.......+.+.+.+... +..+++++.+.
T Consensus        98 ~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~  140 (157)
T cd00267          98 NPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDP  140 (157)
T ss_pred             CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCH
Confidence            47899999975 6777788888888876433 35566666653

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.29  E-value=0.0022  Score=58.06  Aligned_cols=48  Identities=27%  Similarity=0.502  Sum_probs=34.1

Q ss_pred             HHHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           35 ARLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        35 ~~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      ..|.+.+..|-.+.  ++++|+||+|||+++..++..+...  +..++.++.
T Consensus        69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~--g~~VlYvs~  118 (372)
T cd01121          69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKR--GGKVLYVSG  118 (372)
T ss_pred             HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEC
Confidence            45667776665554  6999999999999999999876433  234445444

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.28  E-value=0.0013  Score=51.21  Aligned_cols=93  Identities=17%  Similarity=0.243  Sum_probs=55.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC------CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCC-
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS------DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEA-  120 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~------~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~-  120 (331)
                      .+.+.||+|+|||++++.++..+.....   -+.++..      ...+..+.+. +.-+.  .+   ..++.++++||. 
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~~~~G---~i~~~~~~~i~~~~~lS~G~~~r-v~lar--al---~~~p~illlDEP~   98 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGELEPDEG---IVTWGSTVKIGYFEQLSGGEKMR-LALAK--LL---LENPNLLLLDEPT   98 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCCce---EEEECCeEEEEEEccCCHHHHHH-HHHHH--HH---hcCCCEEEEeCCc
Confidence            3799999999999999999886532211   1111110      0011122111 11111  11   245789999996 


Q ss_pred             CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          121 DSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       121 d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      ..+.......+.+++.+..  ..+++++.+.
T Consensus        99 ~~LD~~~~~~l~~~l~~~~--~til~~th~~  127 (144)
T cd03221          99 NHLDLESIEALEEALKEYP--GTVILVSHDR  127 (144)
T ss_pred             cCCCHHHHHHHHHHHHHcC--CEEEEEECCH
Confidence            5778888888888888752  4566666553

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.28  E-value=0.0025  Score=52.29  Aligned_cols=22  Identities=45%  Similarity=0.813  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|+||+|||++++.+++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999987

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PF13479 AAA_24: AAA domain

Probab=97.27  E-value=0.00044  Score=57.84  Aligned_cols=62  Identities=21%  Similarity=0.417  Sum_probs=37.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC----------CC---CChHhHHHHHHHHHhcccCCCCCCceEE
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS----------DD---RGIDVVRNKIKMFAQKKVTLPPGKHKVV  115 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~----------~~---~~~~~i~~~i~~~~~~~~~~~~~~~~vv  115 (331)
                      +++||+||+|||+++..+-+-+        ++.+...          +.   ...+.+.+.+..+...     ..++.+|
T Consensus         6 ~lIyG~~G~GKTt~a~~~~k~l--------~id~E~g~~~~~~~~~~~~i~i~s~~~~~~~~~~l~~~-----~~~y~ti   72 (213)
T PF13479_consen    6 ILIYGPPGSGKTTLAASLPKPL--------FIDTENGSDSLKFLDDGDVIPITSWEDFLEALDELEED-----EADYDTI   72 (213)
T ss_pred             EEEECCCCCCHHHHHHhCCCeE--------EEEeCCCccchhhhcCCCeeCcCCHHHHHHHHHHHHhc-----cCCCCEE
Confidence            8999999999999999883222        2222211          11   1233444444333332     3568999


Q ss_pred             EEeCCCCC
Q 020071          116 VLDEADSM  123 (331)
Q Consensus       116 iide~d~l  123 (331)
                      |||.++.+
T Consensus        73 VIDsis~~   80 (213)
T PF13479_consen   73 VIDSISWL   80 (213)
T ss_pred             EEECHHHH
Confidence            99987654

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.25  E-value=0.0017  Score=58.52  Aligned_cols=22  Identities=45%  Similarity=0.667  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||+|+||||++..++..+
T Consensus       140 i~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        140 FALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7999999999999999999875

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=97.24  E-value=0.0023  Score=60.61  Aligned_cols=41  Identities=20%  Similarity=0.157  Sum_probs=33.0

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+++++|+||+ ..+.++....|.+.+++--+++.+|-++..
T Consensus       532 ~kP~~v~LDEATsALDe~~e~~l~q~l~~~lp~~tvISV~Hr  573 (604)
T COG4178         532 HKPKWVFLDEATSALDEETEDRLYQLLKEELPDATVISVGHR  573 (604)
T ss_pred             cCCCEEEEecchhccChHHHHHHHHHHHhhCCCCEEEEeccc
Confidence            46899999998 567888999999999986556777777654

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=97.24  E-value=0.015  Score=45.23  Aligned_cols=30  Identities=30%  Similarity=0.534  Sum_probs=25.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      +.+.|++|+|||++++.+++.+     +.+++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~-----~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKL-----GLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh-----CCceeccc
Confidence            5899999999999999999988     55555444

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=97.23  E-value=0.0011  Score=56.49  Aligned_cols=26  Identities=27%  Similarity=0.484  Sum_probs=23.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      .++|.||+|+|||++++.+++.+...
T Consensus        18 r~~I~G~~G~GKTTLlr~I~n~l~~~   43 (249)
T cd01128          18 RGLIVAPPKAGKTTLLQSIANAITKN   43 (249)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccccc
Confidence            38999999999999999999987544

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=97.23  E-value=0.0021  Score=50.55  Aligned_cols=29  Identities=38%  Similarity=0.460  Sum_probs=24.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      ++++|++|+|||++++.+++.+     +..++..
T Consensus         2 i~l~G~~GsGKstla~~la~~l-----~~~~~~~   30 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL-----GLPFVDL   30 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh-----CCCEEEc
Confidence            7899999999999999999988     5555543

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>TIGR01613 primase_Cterm phage/plasmid primase, P4 family, C-terminal domain

Probab=97.22  E-value=0.0054  Score=54.30  Aligned_cols=132  Identities=18%  Similarity=0.235  Sum_probs=71.9

Q ss_pred             CCcccc-CHHHHHHHHHHHHc---C-CCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHH
Q 020071           24 VCDIVG-NLDAVARLGIIARD---G-NMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNK   96 (331)
Q Consensus        24 ~~~~ig-~~~~~~~l~~~l~~---~-~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~   96 (331)
                      ++++.+ .+.....+.+++..   + ...+  ++++|+.|+|||++...+.+.+ +    ........+.  ..+...+ 
T Consensus        47 L~~~~~~d~~~~~~l~~~lg~~L~~~~~~~~~~~l~G~g~nGKStl~~~l~~l~-G----~~~~~~~~~~--~~~~~~~-  118 (304)
T TIGR01613        47 LLETFGGDNELIEYLQRVIGYSLTGNYTEQKLFFLYGNGGNGKSTFQNLLSNLL-G----DYATTAVASL--KMNEFQE-  118 (304)
T ss_pred             HHHHhCCCHHHHHHHHHHHhHHhcCCCCceEEEEEECCCCCcHHHHHHHHHHHh-C----hhhccCCcch--hhhhccC-
Confidence            344444 44455556555432   2 2222  6999999999999999887665 2    2111111110  0000000 


Q ss_pred             HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHH--------------HhcCCcEEEEeeCCCCCC---Chhhh
Q 020071           97 IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTME--------------IYSNSTRFALACNVSSKI---IEPIQ  159 (331)
Q Consensus        97 i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le--------------~~~~~~~~I~~~~~~~~l---~~~l~  159 (331)
                       ..+....    -.++++++.+|++.-.....+.|..+..              +....+.+|+++|....+   ...+.
T Consensus       119 -~~f~~a~----l~gk~l~~~~E~~~~~~~~~~~lK~lt~gd~i~~~~k~k~~~~~~~~~~~i~~tN~~P~~~~~~~a~~  193 (304)
T TIGR01613       119 -HRFGLAR----LEGKRAVIGDEVQKGYRDDESTFKSLTGGDTITARFKNKDPFEFTPKFTLVQSTNHLPRIRGFDGGIK  193 (304)
T ss_pred             -CCchhhh----hcCCEEEEecCCCCCccccHHhhhhhhcCCeEEeecccCCcEEEEEeeEEEEEcCCCCccCCCChhhe
Confidence             0000111    2458899999987433223344444432              112456789999986555   36788


Q ss_pred             cccceeeec
Q 020071          160 SRCAIVRFS  168 (331)
Q Consensus       160 sr~~~i~~~  168 (331)
                      +|..++.|.
T Consensus       194 RR~~vi~f~  202 (304)
T TIGR01613       194 RRLRIIPFT  202 (304)
T ss_pred             eeEEEEecc
Confidence            899888875

This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus.

>PRK14531 adenylate kinase; Provisional

Probab=97.21  E-value=0.0035  Score=51.02  Aligned_cols=23  Identities=39%  Similarity=0.689  Sum_probs=21.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++++||||+||||+++.+++.+
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999988

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.21  E-value=0.004  Score=52.12  Aligned_cols=22  Identities=50%  Similarity=0.800  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++++|+||+|||++++.+++.+
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999988

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.20  E-value=0.0035  Score=55.58  Aligned_cols=25  Identities=40%  Similarity=0.604  Sum_probs=22.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ++|.||+|+||||++..++..+...
T Consensus       117 i~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        117 ILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhc
Confidence            6999999999999999999988644

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.20  E-value=0.0032  Score=58.68  Aligned_cols=48  Identities=27%  Similarity=0.517  Sum_probs=33.9

Q ss_pred             HHHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           35 ARLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        35 ~~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      ..|.+.+..|-.+.  ++++|+||+|||+++..++......  +..++.++.
T Consensus        67 ~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~  116 (446)
T PRK11823         67 GELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSG  116 (446)
T ss_pred             HHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEc
Confidence            35666666664444  6999999999999999999877432  234455544

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=97.19  E-value=0.014  Score=45.85  Aligned_cols=72  Identities=21%  Similarity=0.283  Sum_probs=41.6

Q ss_pred             eCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC---hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHH
Q 020071           52 AGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG---IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQ  128 (331)
Q Consensus        52 ~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~---~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~  128 (331)
                      .+..||||||++.+|.+.+..      +-.+...+..+   ..-+...++...       .....+||.|--..... ..
T Consensus         5 IAtiGCGKTTva~aL~~LFg~------wgHvQnDnI~~k~~~~f~~~~l~~L~-------~~~~~vViaDRNNh~~r-eR   70 (168)
T PF08303_consen    5 IATIGCGKTTVALALSNLFGE------WGHVQNDNITGKRKPKFIKAVLELLA-------KDTHPVVIADRNNHQKR-ER   70 (168)
T ss_pred             ecCCCcCHHHHHHHHHHHcCC------CCccccCCCCCCCHHHHHHHHHHHHh-------hCCCCEEEEeCCCchHH-HH
Confidence            478999999999999998721      22233333222   122222333321       24578999996655433 34


Q ss_pred             HHHHHHHHH
Q 020071          129 QALRRTMEI  137 (331)
Q Consensus       129 ~~Ll~~le~  137 (331)
                      ..|...++.
T Consensus        71 ~ql~~~~~~   79 (168)
T PF08303_consen   71 KQLFEDVSQ   79 (168)
T ss_pred             HHHHHHHHH
Confidence            566666654

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.17  E-value=0.0048  Score=49.60  Aligned_cols=44  Identities=11%  Similarity=0.242  Sum_probs=33.1

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSSK  153 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~  153 (331)
                      .++.++++||. ..+.......+.+++.+......+|+++.+...
T Consensus       113 ~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~  157 (171)
T cd03228         113 RDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLST  157 (171)
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHH
Confidence            45789999996 577888888888888876555667777766543

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.16  E-value=0.0062  Score=51.32  Aligned_cols=63  Identities=21%  Similarity=0.155  Sum_probs=38.7

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCC----CCCceEEeecCCCCChHhHHHHHH
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPN----YREAVMELNASDDRGIDVVRNKIK   98 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~~~~~~~i~~~i~   98 (331)
                      .|.+.+..|-.+.  +.|+||+|+|||+++..++.....++    ....++.++.......+.+.+...
T Consensus         7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~~~   75 (226)
T cd01393           7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLVQLAV   75 (226)
T ss_pred             HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHHHHHH
Confidence            3444555443333  59999999999999999988753321    124556666655433444444433

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.16  E-value=0.0014  Score=59.66  Aligned_cols=100  Identities=20%  Similarity=0.295  Sum_probs=51.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc-CCCCCCceEEeecCCCCChHhHHHH-------------HHHHHhcccCCCCCCceE
Q 020071           49 LILAGPPGTGKTTSILALAHELL-GPNYREAVMELNASDDRGIDVVRNK-------------IKMFAQKKVTLPPGKHKV  114 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~i~~~-------------i~~~~~~~~~~~~~~~~v  114 (331)
                      ++|.||+|+||||++..++..+. ..+....++..+.......+++...             +.......   ...+..+
T Consensus       226 i~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l---~~~~~D~  302 (432)
T PRK12724        226 VFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETL---ARDGSEL  302 (432)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHH---HhCCCCE
Confidence            68999999999999999997652 2222222222221111001111100             00000000   0235678


Q ss_pred             EEEeCCCCCC--HHHHHHHHHHHHHh----cCCcEEEEeeCCC
Q 020071          115 VVLDEADSMT--AGAQQALRRTMEIY----SNSTRFALACNVS  151 (331)
Q Consensus       115 viide~d~l~--~~~~~~Ll~~le~~----~~~~~~I~~~~~~  151 (331)
                      |+||=+.+..  ....+.|.++++..    +..+.+++.++..
T Consensus       303 VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~  345 (432)
T PRK12724        303 ILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSS  345 (432)
T ss_pred             EEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCC
Confidence            9999776653  45566777766531    3345666665543

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.16  E-value=0.0036  Score=50.55  Aligned_cols=97  Identities=16%  Similarity=0.157  Sum_probs=54.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCce----EEeecCCC-CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCC-C
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAV----MELNASDD-RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEAD-S  122 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~----~~~~~~~~-~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d-~  122 (331)
                      +.+.||.|+||||+.+.++..+........+    +.+-.... .+..+ +..+.-+..  +   ..++.++++||.. .
T Consensus        28 ~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq-~qrv~lara--l---~~~p~lllLDEPts~  101 (177)
T cd03222          28 IGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGE-LQRVAIAAA--L---LRNATFYLFDEPSAY  101 (177)
T ss_pred             EEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHH-HHHHHHHHH--H---hcCCCEEEEECCccc
Confidence            7999999999999999998865322111000    11111110 11111 112111111  1   2357899999964 6


Q ss_pred             CCHHHHHHHHHHHHHhcC--CcEEEEeeCCC
Q 020071          123 MTAGAQQALRRTMEIYSN--STRFALACNVS  151 (331)
Q Consensus       123 l~~~~~~~Ll~~le~~~~--~~~~I~~~~~~  151 (331)
                      +.....+.+.+.+.+...  ...+|+++.+.
T Consensus       102 LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~  132 (177)
T cd03222         102 LDIEQRLNAARAIRRLSEEGKKTALVVEHDL  132 (177)
T ss_pred             CCHHHHHHHHHHHHHHHHcCCCEEEEEECCH
Confidence            777788888888775432  24566666653

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.16  E-value=0.0033  Score=53.33  Aligned_cols=62  Identities=16%  Similarity=0.110  Sum_probs=38.2

Q ss_pred             HHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCC----CCCceEEeecCCCCChHhHHHHHH
Q 020071           37 LGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPN----YREAVMELNASDDRGIDVVRNKIK   98 (331)
Q Consensus        37 l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~~~~~~~i~~~i~   98 (331)
                      |...+..|-.+.  +.|+||+|+|||+++..++.......    ....++.++.......+.+.+..+
T Consensus         8 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~~   75 (235)
T cd01123           8 LDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIAE   75 (235)
T ss_pred             hHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHHH
Confidence            344444443333  59999999999999999986543221    124567777665434444444443

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=97.15  E-value=0.0031  Score=54.84  Aligned_cols=23  Identities=30%  Similarity=0.593  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.||+|+|||+++..+++.+.
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~~   24 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKLN   24 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            58999999999999999999883

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.15  E-value=0.0038  Score=50.25  Aligned_cols=25  Identities=40%  Similarity=0.485  Sum_probs=22.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ++++|++|+|||+++..++..+...
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            5899999999999999999887544

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.15  E-value=0.011  Score=48.09  Aligned_cols=25  Identities=24%  Similarity=0.464  Sum_probs=22.4

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           46 MPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+-+++.|++|+||||+++.+++.+
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3457999999999999999999987

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=97.15  E-value=0.0027  Score=55.17  Aligned_cols=105  Identities=20%  Similarity=0.290  Sum_probs=59.1

Q ss_pred             CCCCCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-----------
Q 020071           21 PTKVCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-----------   87 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-----------   87 (331)
                      +.+++++.-.......+.+.+...  ...+++|.|++|+||||+..++...+....  ..++.+.....           
T Consensus       100 ~~sle~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~~--~~iv~iEd~~E~~l~~~~~~~~  177 (270)
T PF00437_consen  100 PFSLEDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPED--ERIVTIEDPPELRLPGPNQIQI  177 (270)
T ss_dssp             --CHCCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTTT--SEEEEEESSS-S--SCSSEEEE
T ss_pred             cccHhhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhccccc--cceEEeccccceeecccceEEE
Confidence            446777776655555555555443  112589999999999999999999886541  22222211100           


Q ss_pred             ---CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH
Q 020071           88 ---RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI  137 (331)
Q Consensus        88 ---~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~  137 (331)
                         .......+.+..+.       ..++.+++|.|+-.-  ++... ++.+..
T Consensus       178 ~~~~~~~~~~~~l~~~L-------R~~pD~iiigEiR~~--e~~~~-~~a~~t  220 (270)
T PF00437_consen  178 QTRRDEISYEDLLKSAL-------RQDPDVIIIGEIRDP--EAAEA-IQAANT  220 (270)
T ss_dssp             EEETTTBSHHHHHHHHT-------TS--SEEEESCE-SC--HHHHH-HHHHHT
T ss_pred             EeecCcccHHHHHHHHh-------cCCCCcccccccCCH--hHHHH-HHhhcc
Confidence               11223444554443       334679999998754  44444 666653

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=97.14  E-value=0.0035  Score=49.29  Aligned_cols=20  Identities=45%  Similarity=0.780  Sum_probs=19.0

Q ss_pred             EeCCCCccHHHHHHHHHHHh
Q 020071           51 LAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        51 l~G~~G~GKt~la~~l~~~l   70 (331)
                      +.||||+||+++++.+++.+
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            57999999999999999988

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>PRK13947 shikimate kinase; Provisional

Probab=97.14  E-value=0.00059  Score=54.87  Aligned_cols=32  Identities=34%  Similarity=0.405  Sum_probs=27.1

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      .++++.|++|+|||++++.+++.+     +.+++..+
T Consensus         2 ~~I~l~G~~GsGKst~a~~La~~l-----g~~~id~d   33 (171)
T PRK13947          2 KNIVLIGFMGTGKTTVGKRVATTL-----SFGFIDTD   33 (171)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh-----CCCEEECc
Confidence            368999999999999999999998     66666543

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.12  E-value=0.0031  Score=53.62  Aligned_cols=48  Identities=23%  Similarity=0.256  Sum_probs=32.7

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .|.+.+..|-.+.  ++++||||+|||+++..++......  +..++.+...
T Consensus         9 ~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~--ge~~lyvs~e   58 (237)
T TIGR03877         9 GMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGIYVALE   58 (237)
T ss_pred             hHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEEee
Confidence            4555566664444  7999999999999999887764332  4455555543

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.12  E-value=0.022  Score=53.55  Aligned_cols=117  Identities=13%  Similarity=0.234  Sum_probs=83.3

Q ss_pred             CceEEEEeCCCCCC--HHHHHHHHHHHHHh--cCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhc
Q 020071          111 KHKVVVLDEADSMT--AGAQQALRRTMEIY--SNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEE  186 (331)
Q Consensus       111 ~~~vviide~d~l~--~~~~~~Ll~~le~~--~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~  186 (331)
                      ...++|+.|+|.+-  +.....|.++....  .+.+ +|+++ ..-.+++.|.+-+.++.++-|+.+|+..++...+...
T Consensus        81 ~~~~~vl~d~h~~~~~~~~~r~l~~l~~~~~~~~~~-~i~~~-~~~~~p~el~~~~~~~~~~lP~~~ei~~~l~~~~~~~  158 (489)
T CHL00195         81 TPALFLLKDFNRFLNDISISRKLRNLSRILKTQPKT-IIIIA-SELNIPKELKDLITVLEFPLPTESEIKKELTRLIKSL  158 (489)
T ss_pred             CCcEEEEecchhhhcchHHHHHHHHHHHHHHhCCCE-EEEEc-CCCCCCHHHHhceeEEeecCcCHHHHHHHHHHHHHhc
Confidence            35699999999883  33344444443322  2233 44444 3467888898888899999999999999998888777


Q ss_pred             CCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHhhCCCccchhhhh
Q 020071          187 KVPYVPEGLEAIIFTADG-DMRQALNNLQATYSGFRFVNQENVF  229 (331)
Q Consensus       187 ~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~~~~~~~i~~~~v~  229 (331)
                      +..++++.++.+++.+.| +...+.+.+.......+.++.+++.
T Consensus       159 ~~~~~~~~~~~l~~~~~gls~~~~~~~~~~~~~~~~~~~~~~~~  202 (489)
T CHL00195        159 NIKIDSELLENLTRACQGLSLERIRRVLSKIIATYKTIDENSIP  202 (489)
T ss_pred             CCCCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHHcCCCChhhHH
Confidence            888999999999998766 5666777766554445556666543

>TIGR02012 tigrfam_recA protein RecA

Probab=97.11  E-value=0.0035  Score=55.39  Aligned_cols=38  Identities=26%  Similarity=0.292  Sum_probs=27.5

Q ss_pred             HHHHHHH-cCCCCe--EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           36 RLGIIAR-DGNMPN--LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        36 ~l~~~l~-~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      .|..++. .|-++.  +.++||+|+|||+++..++......
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~   82 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKA   82 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4555665 443333  5999999999999999888776443

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=97.11  E-value=0.0033  Score=55.35  Aligned_cols=23  Identities=35%  Similarity=0.671  Sum_probs=21.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.||+|+|||++|..+++.+.
T Consensus         7 i~i~GptgsGKt~la~~la~~~~   29 (307)
T PRK00091          7 IVIVGPTASGKTALAIELAKRLN   29 (307)
T ss_pred             EEEECCCCcCHHHHHHHHHHhCC
Confidence            79999999999999999999884

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.11  E-value=0.0007  Score=54.46  Aligned_cols=29  Identities=34%  Similarity=0.430  Sum_probs=25.2

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .++|+|++|+|||++++.+++.+     +.+++.
T Consensus         6 ~i~l~G~~GsGKstla~~La~~l-----~~~~~d   34 (175)
T PRK00131          6 NIVLIGFMGAGKSTIGRLLAKRL-----GYDFID   34 (175)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh-----CCCEEE
Confidence            48999999999999999999998     555554

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.10  E-value=0.0096  Score=47.95  Aligned_cols=43  Identities=16%  Similarity=0.346  Sum_probs=31.6

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CcEEEEeeCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSN-STRFALACNVSS  152 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~-~~~~I~~~~~~~  152 (331)
                      .+++++++||. ..+.......+.+.+.+... +..+|+++.+..
T Consensus       113 ~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~  157 (173)
T cd03246         113 GNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPE  157 (173)
T ss_pred             cCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            46789999996 57788888888888876533 456777776653

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PRK02496 adk adenylate kinase; Provisional

Probab=97.10  E-value=0.0045  Score=50.42  Aligned_cols=23  Identities=52%  Similarity=0.895  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.||||+|||++++.+++.+
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999999988

>PRK05973 replicative DNA helicase; Provisional

Probab=97.10  E-value=0.0038  Score=52.71  Aligned_cols=34  Identities=29%  Similarity=0.350  Sum_probs=25.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      +++.|+||+|||+++..++......  +.+++.++.
T Consensus        67 ~LIaG~PG~GKT~lalqfa~~~a~~--Ge~vlyfSl  100 (237)
T PRK05973         67 VLLGARPGHGKTLLGLELAVEAMKS--GRTGVFFTL  100 (237)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEE
Confidence            6999999999999999998876433  334444443

>PRK13808 adenylate kinase; Provisional

Probab=97.09  E-value=0.0077  Score=53.36  Aligned_cols=23  Identities=48%  Similarity=0.804  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.||||+|||+++..+++.+
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~y   24 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQY   24 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999999988

>TIGR01351 adk adenylate kinases

Probab=97.08  E-value=0.0088  Score=49.84  Aligned_cols=22  Identities=45%  Similarity=0.825  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.||||+||||+++.+++.+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999987

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.07  E-value=0.0094  Score=48.76  Aligned_cols=110  Identities=18%  Similarity=0.245  Sum_probs=59.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCce--------------------------------EEeecCCC-CChHhHHH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAV--------------------------------MELNASDD-RGIDVVRN   95 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~--------------------------------~~~~~~~~-~~~~~i~~   95 (331)
                      +++.|+.|+|||.+.+.++.-+..++....+                                +.++.... .+...-+.
T Consensus        31 ~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~~l~G~l~~~~~~~~~~~~~~~~~~~  110 (235)
T COG2874          31 ILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTELTVREFIKQMESLSYDVSDFLLSGRLLFFPVNLEPVNWGRRSARK  110 (235)
T ss_pred             EEEECCCCccHHHHHHHHHHHHHhCCceEEEEEechhHHHHHHHHHhcCCCchHHHhcceeEEEEecccccccChHHHHH
Confidence            6999999999999999999887654432221                                22211111 12223333


Q ss_pred             HHHHHHhcccCCCCCCceEEEEeCCCCCCHHH-HHHHHHHH---HHhcCCcEEEEeeCCCCCCChhhhcc
Q 020071           96 KIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA-QQALRRTM---EIYSNSTRFALACNVSSKIIEPIQSR  161 (331)
Q Consensus        96 ~i~~~~~~~~~~~~~~~~vviide~d~l~~~~-~~~Ll~~l---e~~~~~~~~I~~~~~~~~l~~~l~sr  161 (331)
                      .++......-   .-+..|+|||-+..+...+ .++.+++|   ....+...+|++|-++..+.+....|
T Consensus       111 ~L~~l~~~~k---~~~~dViIIDSls~~~~~~~~~~vl~fm~~~r~l~d~gKvIilTvhp~~l~e~~~~r  177 (235)
T COG2874         111 LLDLLLEFIK---RWEKDVIIIDSLSAFATYDSEDAVLNFMTFLRKLSDLGKVIILTVHPSALDEDVLTR  177 (235)
T ss_pred             HHHHHHhhHH---hhcCCEEEEecccHHhhcccHHHHHHHHHHHHHHHhCCCEEEEEeChhhcCHHHHHH
Confidence            3333333321   3456799999776553222 33344444   34444555666666666655444443

>PRK13826 Dtr system oriT relaxase; Provisional

Probab=97.07  E-value=0.0048  Score=62.88  Aligned_cols=95  Identities=19%  Similarity=0.197  Sum_probs=58.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC--------CCh--HhHHHHHHHHHhcccCCCCCCceEEEEe
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD--------RGI--DVVRNKIKMFAQKKVTLPPGKHKVVVLD  118 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--------~~~--~~i~~~i~~~~~~~~~~~~~~~~vviid  118 (331)
                      .++.|++|+|||++.+.+.+.+...  +..++-+.++..        .++  ..+...+..+....  .+.....++|||
T Consensus       400 ~~v~G~AGTGKTt~l~~~~~~~e~~--G~~V~g~ApTgkAA~~L~e~~Gi~a~TIas~ll~~~~~~--~~l~~~~vlVID  475 (1102)
T PRK13826        400 AAVVGRAGAGKTTMMKAAREAWEAA--GYRVVGGALAGKAAEGLEKEAGIQSRTLSSWELRWNQGR--DQLDNKTVFVLD  475 (1102)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHc--CCeEEEEcCcHHHHHHHHHhhCCCeeeHHHHHhhhccCc--cCCCCCcEEEEE
Confidence            6999999999999999998876433  233333322110        011  11222111111111  112346799999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          119 EADSMTAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       119 e~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      |+..++......|++..+.  .++++|++..
T Consensus       476 EAsMv~~~~m~~Ll~~~~~--~garvVLVGD  504 (1102)
T PRK13826        476 EAGMVASRQMALFVEAVTR--AGAKLVLVGD  504 (1102)
T ss_pred             CcccCCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            9999999888888888864  4577777764

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=97.07  E-value=0.012  Score=52.16  Aligned_cols=48  Identities=25%  Similarity=0.340  Sum_probs=35.4

Q ss_pred             CCCCCccc--c--CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           21 PTKVCDIV--G--NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        21 p~~~~~~i--g--~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.++++++  |  .+.....|...+..+.  +++++|++|+|||+++++++..+
T Consensus       121 ~~tl~~l~~~g~~~~~~~~~L~~~v~~~~--~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        121 IFTLDQYVERGIMTAAQREAIIAAVRAHR--NILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             CCCHHHHHhcCCCCHHHHHHHHHHHHcCC--eEEEECCCCCCHHHHHHHHHHhh
Confidence            34555664  2  2455566777776553  69999999999999999999875

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.06  E-value=0.012  Score=55.33  Aligned_cols=23  Identities=48%  Similarity=0.798  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|+||.|+|||+++..++..+.
T Consensus       353 IaLVGPtGvGKTTtaakLAa~la  375 (559)
T PRK12727        353 IALVGPTGAGKTTTIAKLAQRFA  375 (559)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999988764

>PRK03839 putative kinase; Provisional

Probab=97.06  E-value=0.00065  Score=55.17  Aligned_cols=29  Identities=38%  Similarity=0.581  Sum_probs=25.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      ++|.|+||+||||+++.+++.+     +.+++.+
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~-----~~~~id~   31 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKL-----GYEYVDL   31 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh-----CCcEEeh
Confidence            7999999999999999999998     5555543

>PRK04328 hypothetical protein; Provisional

Probab=97.06  E-value=0.0036  Score=53.67  Aligned_cols=48  Identities=23%  Similarity=0.233  Sum_probs=31.8

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .|.+.+..|-++.  ++++|+||+|||+++..++......  +...+.++..
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~--ge~~lyis~e   60 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGVYVALE   60 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEEee
Confidence            3455555554333  6999999999999999988764333  3344555543

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.05  E-value=0.0058  Score=54.08  Aligned_cols=51  Identities=20%  Similarity=0.058  Sum_probs=31.3

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCC----CCCCceEEeecCC
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGP----NYREAVMELNASD   86 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~   86 (331)
                      .|.+.+.+|-.+.  ..++||+|+|||+++..++-....+    +.+..+++++...
T Consensus        84 ~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~  140 (313)
T TIGR02238        84 ALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEG  140 (313)
T ss_pred             HHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCC
Confidence            3455555443333  5999999999999998887543211    1123455555544

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.05  E-value=0.0048  Score=55.45  Aligned_cols=26  Identities=42%  Similarity=0.689  Sum_probs=22.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      ++|.||.|+||||++..++..+...+
T Consensus       209 i~lvGptGvGKTTt~akLA~~l~~~g  234 (407)
T PRK12726        209 ISLIGQTGVGKTTTLVKLGWQLLKQN  234 (407)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            69999999999999999998775443

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.05  E-value=0.011  Score=47.94  Aligned_cols=44  Identities=11%  Similarity=0.075  Sum_probs=33.2

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSSK  153 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~  153 (331)
                      .+++++++||. ..+.......+.+.+.+......+|+++.+...
T Consensus       115 ~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~  159 (178)
T cd03247         115 QDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTG  159 (178)
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            46789999996 577888888888888766445667777776543

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.04  E-value=0.0059  Score=49.55  Aligned_cols=102  Identities=19%  Similarity=0.242  Sum_probs=58.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC--ChHhHHHH-------HHH-----HH-hcccCCC----
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR--GIDVVRNK-------IKM-----FA-QKKVTLP----  108 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~--~~~~i~~~-------i~~-----~~-~~~~~~~----  108 (331)
                      .+.|.||+|+|||++.+.++..+....   --+.++..+..  ....+...       ++.     .. .....++    
T Consensus        27 ~~~l~G~nGsGKStLl~~i~G~~~~~~---G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~~  103 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGLLKPSS---GEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGER  103 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCC---cEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHHH
Confidence            379999999999999999988653211   11223321110  01111110       000     00 0000000    


Q ss_pred             ---------CCCceEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CcEEEEeeCCCC
Q 020071          109 ---------PGKHKVVVLDEA-DSMTAGAQQALRRTMEIYSN--STRFALACNVSS  152 (331)
Q Consensus       109 ---------~~~~~vviide~-d~l~~~~~~~Ll~~le~~~~--~~~~I~~~~~~~  152 (331)
                               ..++.++++||. ..+.......+.+.+.+...  +..+|+++.+..
T Consensus       104 qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~  159 (180)
T cd03214         104 QRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLN  159 (180)
T ss_pred             HHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence                     246899999996 47788888888888876543  456677776544

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK00625 shikimate kinase; Provisional

Probab=97.04  E-value=0.00077  Score=54.24  Aligned_cols=31  Identities=32%  Similarity=0.392  Sum_probs=26.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      +++|.|.+|+|||++++.+++.+     +.+++.++
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l-----~~~~id~D   32 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL-----SLPFFDTD   32 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh-----CCCEEEhh
Confidence            48999999999999999999998     66666554

>PRK14527 adenylate kinase; Provisional

Probab=97.04  E-value=0.0087  Score=49.05  Aligned_cols=23  Identities=52%  Similarity=0.777  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.||||+||||+++.+++.+.
T Consensus         9 i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          9 VIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            79999999999999999998873

>PRK09354 recA recombinase A; Provisional

Probab=97.03  E-value=0.008  Score=53.62  Aligned_cols=37  Identities=32%  Similarity=0.413  Sum_probs=27.1

Q ss_pred             HHHHHHHcCCCCe---EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           36 RLGIIARDGNMPN---LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        36 ~l~~~l~~~~~~~---~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .|..++.-|.+|.   +.++||+|+|||+++..++.....
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~   86 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK   86 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4555666244443   599999999999999998876543

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases

Probab=97.01  E-value=0.0013  Score=55.63  Aligned_cols=21  Identities=38%  Similarity=0.741  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|+||+|||++++.+...
T Consensus         1 ~vv~G~pGsGKSt~i~~~~~~   21 (234)
T PF01443_consen    1 IVVHGVPGSGKSTLIKKLLKD   21 (234)
T ss_pred             CEEEcCCCCCHHHHHHHHHHh
Confidence            378999999999999999987

Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity

>PLN02674 adenylate kinase

Probab=97.01  E-value=0.022  Score=48.41  Aligned_cols=24  Identities=46%  Similarity=0.746  Sum_probs=22.3

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.++|.||||+||+|.++.+++.+
T Consensus        32 ~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         32 KRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHc
Confidence            458999999999999999999987

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.01  E-value=0.018  Score=47.69  Aligned_cols=28  Identities=36%  Similarity=0.519  Sum_probs=23.6

Q ss_pred             CCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           44 GNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        44 ~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ....+.|+.||||+||||+.+-+++.+.
T Consensus       135 ~g~lntLiigpP~~GKTTlLRdiaR~~s  162 (308)
T COG3854         135 NGWLNTLIIGPPQVGKTTLLRDIARLLS  162 (308)
T ss_pred             cCceeeEEecCCCCChHHHHHHHHHHhh
Confidence            3334589999999999999999999874

>PRK07261 topology modulation protein; Provisional

Probab=97.01  E-value=0.00082  Score=54.10  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+||||+|+.+++.+
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999887

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.00  E-value=0.014  Score=46.81  Aligned_cols=32  Identities=25%  Similarity=0.354  Sum_probs=24.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      +++.|++|+|||++|..++...     +.+.+.+...
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~-----~~~~~y~at~   33 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL-----GGPVTYIATA   33 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----CCCeEEEEcc
Confidence            5899999999999999998863     3344555443

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.00  E-value=0.0023  Score=51.02  Aligned_cols=22  Identities=50%  Similarity=0.756  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.||+|+||||+++.+++.+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4789999999999999999987

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.00  E-value=0.014  Score=47.64  Aligned_cols=22  Identities=41%  Similarity=0.546  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+||+|+|||++++.+.+..
T Consensus         7 ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          7 FIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            7999999999999999998875

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.99  E-value=0.011  Score=47.17  Aligned_cols=99  Identities=23%  Similarity=0.262  Sum_probs=56.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCC------CceEEeecCCCCChHhHHHHHHH--------------HHhcccCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYR------EAVMELNASDDRGIDVVRNKIKM--------------FAQKKVTLP  108 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~------~~~~~~~~~~~~~~~~i~~~i~~--------------~~~~~~~~~  108 (331)
                      +.+.||.|+|||++++.++..+......      ..+..+..........+.+.+..              .....+   
T Consensus        30 ~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~~~~~LS~G~~~rv~laral---  106 (166)
T cd03223          30 LLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYPWDDVLSGGEQQRLAFARLL---  106 (166)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEECCCCccccccHHHHhhccCCCCCCHHHHHHHHHHHHH---
Confidence            7999999999999999999875422110      00111111100000112222110              000001   


Q ss_pred             CCCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          109 PGKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       109 ~~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      ..+++++++||. ..+.......+.+.+.+.  ...+|+++.+..
T Consensus       107 ~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~  149 (166)
T cd03223         107 LHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPS  149 (166)
T ss_pred             HcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChh
Confidence            246789999996 467788888898988876  245667776653

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK06547 hypothetical protein; Provisional

Probab=96.99  E-value=0.0017  Score=52.20  Aligned_cols=30  Identities=37%  Similarity=0.465  Sum_probs=24.0

Q ss_pred             HHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           41 ARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        41 l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +..+....+.+.|++|+|||++++.+++.+
T Consensus        10 ~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         10 LCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             hhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            343443337999999999999999999987

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.98  E-value=0.011  Score=48.74  Aligned_cols=23  Identities=30%  Similarity=0.699  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.||+|+||||++..+...+.
T Consensus         4 ilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            79999999999999999988875

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.98  E-value=0.0039  Score=54.07  Aligned_cols=26  Identities=38%  Similarity=0.599  Sum_probs=22.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      +.|+||+|+||||++..++..+...+
T Consensus        75 i~l~G~~G~GKTTt~akLA~~l~~~g  100 (272)
T TIGR00064        75 ILFVGVNGVGKTTTIAKLANKLKKQG  100 (272)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcC
Confidence            68889999999999999998886543

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PF13245 AAA_19: Part of AAA domain

Probab=96.97  E-value=0.0014  Score=44.90  Aligned_cols=23  Identities=57%  Similarity=0.951  Sum_probs=17.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.||||+|||+++...+..+.
T Consensus        13 ~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   13 FVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            57799999999966666655553

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.96  E-value=0.0058  Score=48.40  Aligned_cols=46  Identities=26%  Similarity=0.371  Sum_probs=31.8

Q ss_pred             CHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           30 NLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      |+..+....+....+..+- +.|+|.+|+||||+|.++.+.+...+.
T Consensus         6 ~~~~v~~~~r~~~~~~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~   52 (197)
T COG0529           6 HPHSVTKQEREALKGQKGAVIWFTGLSGSGKSTIANALEEKLFAKGY   52 (197)
T ss_pred             cccccCHHHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHcCC
Confidence            3333333333444444444 799999999999999999999976643

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.95  E-value=0.0026  Score=57.25  Aligned_cols=26  Identities=23%  Similarity=0.437  Sum_probs=23.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ..++.||+|+|||++++.+++.....
T Consensus       171 R~lIvgppGvGKTTLaK~Ian~I~~n  196 (416)
T PRK09376        171 RGLIVAPPKAGKTVLLQNIANSITTN  196 (416)
T ss_pred             eEEEeCCCCCChhHHHHHHHHHHHhh
Confidence            37999999999999999999988654

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.95  E-value=0.0059  Score=56.05  Aligned_cols=28  Identities=32%  Similarity=0.423  Sum_probs=23.7

Q ss_pred             Ce-EEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           47 PN-LILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        47 ~~-~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      |. ++|+|++|+||||++..++..+...+
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G  128 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKG  128 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCC
Confidence            45 69999999999999999998876543

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=96.95  E-value=0.00047  Score=56.69  Aligned_cols=54  Identities=17%  Similarity=0.155  Sum_probs=32.9

Q ss_pred             CceEEEEeCCCCCCHH-H-----HHHHHHHHHHh-cCCcEEEEeeCCCCCCChhhhcccce
Q 020071          111 KHKVVVLDEADSMTAG-A-----QQALRRTMEIY-SNSTRFALACNVSSKIIEPIQSRCAI  164 (331)
Q Consensus       111 ~~~vviide~d~l~~~-~-----~~~Ll~~le~~-~~~~~~I~~~~~~~~l~~~l~sr~~~  164 (331)
                      ...++||||++..-+. .     .....+.+... ..+.-+|++|.++..+.+.++..+..
T Consensus        79 ~~~liviDEa~~~~~~r~~~~~~~~~~~~~l~~hRh~g~diiliTQ~~~~id~~ir~lve~  139 (193)
T PF05707_consen   79 KGSLIVIDEAQNFFPSRSWKGKKVPEIIEFLAQHRHYGWDIILITQSPSQIDKFIRDLVEY  139 (193)
T ss_dssp             TT-EEEETTGGGTSB---T-T----HHHHGGGGCCCTT-EEEEEES-GGGB-HHHHCCEEE
T ss_pred             CCcEEEEECChhhcCCCccccccchHHHHHHHHhCcCCcEEEEEeCCHHHHhHHHHHHHhe
Confidence            5789999999866321 1     12333555433 34677999999999999999877543

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.95  E-value=0.011  Score=52.33  Aligned_cols=37  Identities=32%  Similarity=0.403  Sum_probs=26.9

Q ss_pred             HHHHHHHcCCCCe---EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           36 RLGIIARDGNMPN---LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        36 ~l~~~l~~~~~~~---~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .|..++.-|.+|.   +.++||+|+|||+++..++.....
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~   81 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQK   81 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4555565244433   599999999999999998876643

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.95  E-value=0.0023  Score=56.28  Aligned_cols=49  Identities=29%  Similarity=0.295  Sum_probs=36.5

Q ss_pred             CCCCCccc--c--CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           21 PTKVCDIV--G--NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        21 p~~~~~~i--g--~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.++++++  |  .+.....|..++..+.  +++++|++|+||||+++++...+.
T Consensus       105 ~~tl~~l~~~g~~~~~~~~~L~~~v~~~~--~ilI~G~tGSGKTTll~al~~~i~  157 (299)
T TIGR02782       105 VFTLDDYVEAGIMTAAQRDVLREAVLARK--NILVVGGTGSGKTTLANALLAEIA  157 (299)
T ss_pred             CCCHHHHHhcCCCCHHHHHHHHHHHHcCC--eEEEECCCCCCHHHHHHHHHHHhh
Confidence            34555554  2  3455667777777543  699999999999999999998874

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.94  E-value=0.0038  Score=61.18  Aligned_cols=42  Identities=14%  Similarity=0.238  Sum_probs=32.1

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      .+++++++||+ ..+..+....+.+.|.+...++.+|+++.+.
T Consensus       626 ~~P~ILlLDEaTSaLD~~sE~~I~~~L~~~~~~~T~I~IaHRl  668 (709)
T COG2274         626 SKPKILLLDEATSALDPETEAIILQNLLQILQGRTVIIIAHRL  668 (709)
T ss_pred             cCCCEEEEeCcccccCHhHHHHHHHHHHHHhcCCeEEEEEccc
Confidence            46899999997 4566777778888888777667777777653

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=96.94  E-value=0.02  Score=45.60  Aligned_cols=100  Identities=20%  Similarity=0.236  Sum_probs=52.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCC----------CC--CceEE----eecCCC-CChHhHHHHHHHHHhcccCCCCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPN----------YR--EAVME----LNASDD-RGIDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~----------~~--~~~~~----~~~~~~-~~~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      ..++.||.|+|||++.+.+.-.+....          .+  .+...    +..... .+..+............    .+
T Consensus        23 ~~~i~G~NgsGKS~~l~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~i~~~~~lS~G~~~~~~la~~L~~~~----~~   98 (162)
T cd03227          23 LTIITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAGCIVAAVSAELIFTRLQLSGGEKELSALALILALAS----LK   98 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcchhhhccCcccCCCcceeeEEEEehheeeccccHHHHHHHHHHHHhcC----CC
Confidence            369999999999999999766543221          11  11121    000111 12112222222222111    23


Q ss_pred             CceEEEEeCCCC-CCHHHHHHHHHHHHHhc-CCcEEEEeeCCC
Q 020071          111 KHKVVVLDEADS-MTAGAQQALRRTMEIYS-NSTRFALACNVS  151 (331)
Q Consensus       111 ~~~vviide~d~-l~~~~~~~Ll~~le~~~-~~~~~I~~~~~~  151 (331)
                      ++.++++||+.. ++......+...+.+.. .++.+|+++.+.
T Consensus        99 ~~~llllDEp~~gld~~~~~~l~~~l~~~~~~~~~vii~TH~~  141 (162)
T cd03227          99 PRPLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVITHLP  141 (162)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEcCCH
Confidence            578999999754 45555566665554432 245667776554

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>PRK10867 signal recognition particle protein; Provisional

Probab=96.93  E-value=0.0082  Score=55.38  Aligned_cols=27  Identities=37%  Similarity=0.529  Sum_probs=22.8

Q ss_pred             Ce-EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           47 PN-LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        47 ~~-~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      |. ++|+|++|+||||++..++..+...
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            45 6999999999999999998877544

>TIGR00767 rho transcription termination factor Rho

Probab=96.92  E-value=0.0027  Score=57.37  Aligned_cols=26  Identities=23%  Similarity=0.434  Sum_probs=23.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      .+++.||+|+|||++++.+++.+..+
T Consensus       170 ~~~IvG~~g~GKTtL~~~i~~~I~~n  195 (415)
T TIGR00767       170 RGLIVAPPKAGKTVLLQKIAQAITRN  195 (415)
T ss_pred             EEEEECCCCCChhHHHHHHHHhhccc
Confidence            38999999999999999999987544

Members of this family differ in the specificity of RNA binding.

>PRK13948 shikimate kinase; Provisional

Probab=96.92  E-value=0.0064  Score=49.31  Aligned_cols=31  Identities=29%  Similarity=0.303  Sum_probs=27.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      +++|.|.+|+|||++++.+++.+     +.+++..+
T Consensus        12 ~I~LiG~~GsGKSTvg~~La~~l-----g~~~iD~D   42 (182)
T PRK13948         12 WVALAGFMGTGKSRIGWELSRAL-----MLHFIDTD   42 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc-----CCCEEECC
Confidence            38999999999999999999998     66777554

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.92  E-value=0.0025  Score=52.05  Aligned_cols=23  Identities=35%  Similarity=0.572  Sum_probs=20.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.||+|+||||+++.++..+
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            37999999999999999998876

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.91  E-value=0.014  Score=45.67  Aligned_cols=23  Identities=39%  Similarity=0.601  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++++|++|+|||++++.++..+.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            58999999999999999999885

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK13949 shikimate kinase; Provisional

Probab=96.91  E-value=0.0012  Score=53.04  Aligned_cols=31  Identities=42%  Similarity=0.521  Sum_probs=26.1

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      +++|.|++|+|||++++.+++.+     +.+++..+
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l-----~~~~id~D   33 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL-----GLSFIDLD   33 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc-----CCCeeccc
Confidence            48999999999999999999998     55555543

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.89  E-value=0.012  Score=49.09  Aligned_cols=20  Identities=25%  Similarity=0.612  Sum_probs=18.7

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      ++|+||.|+|||++.+.++.
T Consensus        32 ~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          32 MVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             EEEECCCCCChHHHHHHHHH
Confidence            79999999999999999984

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=96.88  E-value=0.018  Score=48.09  Aligned_cols=99  Identities=16%  Similarity=0.201  Sum_probs=58.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCc---------------eEEeecCCCCChHhHHHHHHHHHhcccCCCCCCce
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREA---------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHK  113 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~---------------~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  113 (331)
                      ++++|++|+|||+++..+.+....+.....               .+.+..-|..+.+.++.....+...+      ..-
T Consensus         8 ivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~------~~~   81 (219)
T COG1100           8 IVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGA------NGI   81 (219)
T ss_pred             EEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCC------CEE
Confidence            799999999999999999998766433221               11122224445556665555444332      345


Q ss_pred             EEEEeCCC-CCCHHHHHHHHHHHHHhc-CCcEEEEeeCCCCC
Q 020071          114 VVVLDEAD-SMTAGAQQALRRTMEIYS-NSTRFALACNVSSK  153 (331)
Q Consensus       114 vviide~d-~l~~~~~~~Ll~~le~~~-~~~~~I~~~~~~~~  153 (331)
                      +++.|..+ .-..+....+...+.+.. ....+|++.|..+.
T Consensus        82 l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl  123 (219)
T COG1100          82 LIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDL  123 (219)
T ss_pred             EEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEeccccc
Confidence            55555554 223344444554444333 46788888876543

>PRK14530 adenylate kinase; Provisional

Probab=96.88  E-value=0.0013  Score=55.13  Aligned_cols=24  Identities=46%  Similarity=0.800  Sum_probs=22.3

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.++|.|+||+||||+++.+++.+
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            358999999999999999999988

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.87  E-value=0.0088  Score=55.23  Aligned_cols=121  Identities=16%  Similarity=0.226  Sum_probs=73.0

Q ss_pred             CCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC--------------C
Q 020071           21 PTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS--------------D   86 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~--------------~   86 (331)
                      ...|+++-..+.....+.+.+....- -+|++||.|+|||+....+.+.++.+..+  ++.+.-+              .
T Consensus       234 ~l~l~~Lg~~~~~~~~~~~~~~~p~G-liLvTGPTGSGKTTTLY~~L~~ln~~~~n--I~TiEDPVE~~~~gI~Q~qVN~  310 (500)
T COG2804         234 ILDLEKLGMSPFQLARLLRLLNRPQG-LILVTGPTGSGKTTTLYAALSELNTPERN--IITIEDPVEYQLPGINQVQVNP  310 (500)
T ss_pred             cCCHHHhCCCHHHHHHHHHHHhCCCe-EEEEeCCCCCCHHHHHHHHHHHhcCCCce--EEEeeCCeeeecCCcceeeccc
Confidence            45667777777788888888876441 27999999999999999999999765332  2222111              0


Q ss_pred             CCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhh
Q 020071           87 DRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPI  158 (331)
Q Consensus        87 ~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l  158 (331)
                      ..+. .....++.+.       ..++.|++|.|+-..  +..+...+.-.    +..++|+|=..+....++
T Consensus       311 k~gl-tfa~~LRa~L-------RqDPDvImVGEIRD~--ETAeiavqAal----TGHLVlSTlHtnda~~ai  368 (500)
T COG2804         311 KIGL-TFARALRAIL-------RQDPDVIMVGEIRDL--ETAEIAVQAAL----TGHLVLSTLHTNDAPGAI  368 (500)
T ss_pred             ccCC-CHHHHHHHHh-------ccCCCeEEEeccCCH--HHHHHHHHHHh----cCCeEeeecccCchHHHH
Confidence            0111 2223333333       456889999999654  33333333332    345677765555554444

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.87  E-value=0.00085  Score=50.90  Aligned_cols=22  Identities=45%  Similarity=0.655  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+.+.+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5899999999999999999986

...

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.86  E-value=0.0027  Score=48.47  Aligned_cols=24  Identities=38%  Similarity=0.445  Sum_probs=22.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++|.|+.|+|||++++.+++.+..
T Consensus        25 i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        25 VLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcCC
Confidence            799999999999999999999843

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PRK12337 2-phosphoglycerate kinase; Provisional

Probab=96.85  E-value=0.023  Score=52.43  Aligned_cols=24  Identities=38%  Similarity=0.578  Sum_probs=22.2

Q ss_pred             Ce-EEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PN-LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~-~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      |. ++++|++|+|||+++..++..+
T Consensus       255 p~vil~~G~~G~GKSt~a~~LA~~l  279 (475)
T PRK12337        255 PLHVLIGGVSGVGKSVLASALAYRL  279 (475)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            45 6999999999999999999988

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.85  E-value=0.011  Score=55.81  Aligned_cols=49  Identities=20%  Similarity=0.340  Sum_probs=35.2

Q ss_pred             HHHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           35 ARLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        35 ~~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      ..|.+.+..|-.+.  +++.||||+|||+++..++......  +..++.+...
T Consensus       250 ~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~--ge~~~y~s~e  300 (484)
T TIGR02655       250 VRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACAN--KERAILFAYE  300 (484)
T ss_pred             HhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEEee
Confidence            45667777775555  6999999999999999999877543  2344555433

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PRK14529 adenylate kinase; Provisional

Probab=96.83  E-value=0.012  Score=49.23  Aligned_cols=24  Identities=29%  Similarity=0.487  Sum_probs=22.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++|.||||+||||.++.+++.+.
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~   25 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYD   25 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            378999999999999999999984

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.82  E-value=0.021  Score=50.65  Aligned_cols=34  Identities=32%  Similarity=0.499  Sum_probs=26.6

Q ss_pred             HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           36 RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        36 ~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .|...+..+.  ++++.||+|+||||+++++...+.
T Consensus       136 ~l~~~v~~~~--~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       136 FLRLAIASRK--NIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             HHHHHhhCCC--EEEEECCCCCCHHHHHHHHHccCC
Confidence            3444455554  699999999999999999998764

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.82  E-value=0.031  Score=42.86  Aligned_cols=93  Identities=15%  Similarity=0.218  Sum_probs=58.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCC--------CCceE-------EeecCCCCChHhHHHHHHHHHhcccCCCCCCce
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNY--------REAVM-------ELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHK  113 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~--------~~~~~-------~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  113 (331)
                      +++.||.|+||+-+.+.+.+.-.....        +..++       .+.--+..+.+.++..-..+....       ..
T Consensus        12 fl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGA-------AG   84 (214)
T KOG0086|consen   12 FLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGA-------AG   84 (214)
T ss_pred             eEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccc-------cc
Confidence            799999999999999998876543321        11122       222223345566777666665543       23


Q ss_pred             EEEEeCCCCCCHHHHHHHHHHHHH----hcCCcEEEEeeCC
Q 020071          114 VVVLDEADSMTAGAQQALRRTMEI----YSNSTRFALACNV  150 (331)
Q Consensus       114 vviide~d~l~~~~~~~Ll~~le~----~~~~~~~I~~~~~  150 (331)
                      .+++.++  -+.+..|+|-.++.+    .+++.++|++.|.
T Consensus        85 AlLVYD~--TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnK  123 (214)
T KOG0086|consen   85 ALLVYDI--TSRDSFNALTNWLTDARTLASPNIVVILCGNK  123 (214)
T ss_pred             eEEEEec--cchhhHHHHHHHHHHHHhhCCCcEEEEEeCCh
Confidence            4444443  456788999888875    3456777777664

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.82  E-value=0.0083  Score=50.52  Aligned_cols=46  Identities=28%  Similarity=0.292  Sum_probs=30.4

Q ss_pred             HHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           37 LGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        37 l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      |.+.+..|-++.  +++.|+||+|||+++..++......  +..++.++.
T Consensus         5 LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~--g~~~~y~s~   52 (224)
T TIGR03880         5 LDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKN--GEKAMYISL   52 (224)
T ss_pred             hHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEEC
Confidence            445555554333  6999999999999999988765433  334444443

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>cd04124 RabL2 RabL2 subfamily

Probab=96.82  E-value=0.014  Score=46.16  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         3 i~vvG~~~vGKTsli~~~~~~~   24 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMDG   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999887643

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases

Probab=96.82  E-value=0.013  Score=46.62  Aligned_cols=21  Identities=33%  Similarity=0.632  Sum_probs=17.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~   68 (331)
                      ++++.||+|+|||..+...+-
T Consensus        16 ~~li~aptGsGKT~~~~~~~l   36 (169)
T PF00270_consen   16 NVLISAPTGSGKTLAYILPAL   36 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCccHHHHHHHHH
Confidence            599999999999998875443

Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=96.81  E-value=0.11  Score=46.89  Aligned_cols=101  Identities=12%  Similarity=0.049  Sum_probs=59.3

Q ss_pred             ceEEEEeCCCCCCH-----------------HHHHHHHHHHHHhcCCcEEEEeeCCC--C---------------CCChh
Q 020071          112 HKVVVLDEADSMTA-----------------GAQQALRRTMEIYSNSTRFALACNVS--S---------------KIIEP  157 (331)
Q Consensus       112 ~~vviide~d~l~~-----------------~~~~~Ll~~le~~~~~~~~I~~~~~~--~---------------~l~~~  157 (331)
                      +-+|.||++..+..                 ...+.+.+++..-.....+|++....  .               .+.+.
T Consensus       316 kVLvaID~~n~l~~~T~~k~~~~~~v~P~dl~li~~~~~~i~ndwt~g~vi~a~s~~~~~~a~~h~gv~~y~pr~llg~e  395 (461)
T KOG3928|consen  316 KVLVAIDNFNSLFTVTAYKSEDNKPVTPLDLTLIHLLRDIISNDWTFGSVIMAISGVTTPSAFGHLGVAPYVPRKLLGEE  395 (461)
T ss_pred             cEEEEEcCcchheeeeeeeccccCcCCchhhhHHHHHHHHHhcccccceEEEEecccccchhccccccccCCchHhcCcc
Confidence            46888999977632                 12456667776544444455554411  0               01111


Q ss_pred             h---hcccceeeecCCCHHHHHHHHHHHHHhcC--CCC-CHHHHHHHHHhcCCCHHHHHHH
Q 020071          158 I---QSRCAIVRFSRLSDEEILSRLMVVVQEEK--VPY-VPEGLEAIIFTADGDMRQALNN  212 (331)
Q Consensus       158 l---~sr~~~i~~~~~~~~~~~~~l~~~~~~~~--~~i-~~~~~~~l~~~~~g~~r~~~~~  212 (331)
                      .   +.-+..++.++++.+|..+++.-..+..=  ..+ .++....+.-+++||++.....
T Consensus       396 gfe~lqpf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLSngNP~l~~~l  456 (461)
T KOG3928|consen  396 GFEALQPFVPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLSNGNPSLMERL  456 (461)
T ss_pred             chhhccCcCccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhcCCCHHHHHHH
Confidence            1   12255688999999998887765544210  122 3666778888899999654443

>cd01878 HflX HflX subfamily

Probab=96.81  E-value=0.067  Score=44.15  Aligned_cols=24  Identities=33%  Similarity=0.495  Sum_probs=21.2

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHH
Q 020071           46 MPNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .+.+++.|++|+|||++.+.+...
T Consensus        41 ~~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CCeEEEECCCCCCHHHHHHHHhcc
Confidence            355899999999999999999875

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional

Probab=96.81  E-value=0.006  Score=53.38  Aligned_cols=22  Identities=18%  Similarity=0.477  Sum_probs=20.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      -+++.||+|+|||.+|..+++.
T Consensus         6 ii~I~GpTasGKS~LAl~LA~~   27 (300)
T PRK14729          6 IVFIFGPTAVGKSNILFHFPKG   27 (300)
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            3799999999999999999998

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

Probab=96.81  E-value=0.0014  Score=55.29  Aligned_cols=37  Identities=27%  Similarity=0.495  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           32 DAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        32 ~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .....+...+.+..  -.+++||||||||+++..+...+
T Consensus         5 ~Q~~Ai~~~~~~~~--~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    5 SQREAIQSALSSNG--ITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHHHCTSSE---EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCC--CEEEECCCCCChHHHHHHHHHHh
Confidence            34444554544432  16999999999998888888776

>PRK06217 hypothetical protein; Validated

Probab=96.81  E-value=0.0015  Score=53.23  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|.+|+||||+++.+++.+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999998

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.79  E-value=0.0015  Score=43.80  Aligned_cols=22  Identities=36%  Similarity=0.620  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.+.|++|+|||++++.+++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999987

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>PRK06696 uridine kinase; Validated

Probab=96.79  E-value=0.0048  Score=51.95  Aligned_cols=43  Identities=23%  Similarity=0.183  Sum_probs=31.5

Q ss_pred             CHHHHHHHHHHHHc--CCCCe-EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           30 NLDAVARLGIIARD--GNMPN-LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        30 ~~~~~~~l~~~l~~--~~~~~-~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ..+.++.|...+..  ...|. +.+.|++|+||||+|+.+++.+..
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            34556666666543  22233 699999999999999999999854

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=96.77  E-value=0.0013  Score=52.15  Aligned_cols=32  Identities=34%  Similarity=0.426  Sum_probs=27.9

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      ++++|.|+.|+||||+.+.+++.+     +.+|+..+
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L-----~~~F~D~D   34 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKAL-----NLPFIDTD   34 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHc-----CCCcccch
Confidence            358999999999999999999999     77777654

>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase

Probab=96.77  E-value=0.0044  Score=58.47  Aligned_cols=84  Identities=17%  Similarity=0.147  Sum_probs=50.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQ  128 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~  128 (331)
                      ++++|+||+||||+|+.++...     +  +..++....   ......+..+....    .. ++-||||.. .+.....
T Consensus       372 Vil~G~pGSGKST~A~~l~~~~-----g--~~~vn~D~l---g~~~~~~~~a~~~L----~~-G~sVVIDaT-n~~~~~R  435 (526)
T TIGR01663       372 VIAVGFPGAGKSHFCKKFFQPA-----G--YKHVNADTL---GSTQNCLTACERAL----DQ-GKRCAIDNT-NPDAASR  435 (526)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc-----C--CeEECcHHH---HHHHHHHHHHHHHH----hC-CCcEEEECC-CCCHHHH
Confidence            6999999999999999999864     2  344444332   12222222222221    22 334666665 4566677


Q ss_pred             HHHHHHHHHhcCCcEEEEee
Q 020071          129 QALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus       129 ~~Ll~~le~~~~~~~~I~~~  148 (331)
                      ..+.++..+..-.++++...
T Consensus       436 ~~~i~lAk~~gv~v~~i~~~  455 (526)
T TIGR01663       436 AKFLQCARAAGIPCRCFLFN  455 (526)
T ss_pred             HHHHHHHHHcCCeEEEEEeC
Confidence            77888877765555554443

Note that the EC number for the kinase function is: 2.7.1.78

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.77  E-value=0.017  Score=51.02  Aligned_cols=37  Identities=16%  Similarity=0.359  Sum_probs=29.6

Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ....+||||++.|++.   .+..++.....++.+|++.+.
T Consensus       351 ~~~FiIIDEaQNLTph---eikTiltR~G~GsKIVl~gd~  387 (436)
T COG1875         351 PDSFIIIDEAQNLTPH---ELKTILTRAGEGSKIVLTGDP  387 (436)
T ss_pred             ccceEEEehhhccCHH---HHHHHHHhccCCCEEEEcCCH
Confidence            3579999999999875   566677777889999988753

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.77  E-value=0.0069  Score=58.03  Aligned_cols=40  Identities=15%  Similarity=0.278  Sum_probs=28.3

Q ss_pred             CCceEEEEeCCC-CCCHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          110 GKHKVVVLDEAD-SMTAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       110 ~~~~vviide~d-~l~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      .++.++++||+- .+..+....+.+.+.+..++..+|+++.
T Consensus       487 ~~~~iliLDE~TSaLD~~te~~I~~~l~~~~~~~TvIiItH  527 (529)
T TIGR02868       487 ADAPILLLDEPTEHLDAGTESELLEDLLAALSGKTVVVITH  527 (529)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEec
Confidence            468899999975 4677777788888876544445555554

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=96.77  E-value=0.0093  Score=49.03  Aligned_cols=43  Identities=9%  Similarity=0.192  Sum_probs=31.5

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CcEEEEeeCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSN-STRFALACNVSS  152 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~-~~~~I~~~~~~~  152 (331)
                      .++.++++||. ..+.......+.+.+.+... ...+|+++.+..
T Consensus       128 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  172 (194)
T cd03213         128 SNPSLLFLDEPTSGLDSSSALQVMSLLRRLADTGRTIICSIHQPS  172 (194)
T ss_pred             cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEecCch
Confidence            46789999995 56778888888888876543 456677776654

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.76  E-value=0.013  Score=47.23  Aligned_cols=43  Identities=9%  Similarity=0.268  Sum_probs=30.9

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcC-CcEEEEeeCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSN-STRFALACNVSS  152 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~-~~~~I~~~~~~~  152 (331)
                      .+++++++||. ..+.......+.+.+.+... ...+|+++.+..
T Consensus       112 ~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~  156 (173)
T cd03230         112 HDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILE  156 (173)
T ss_pred             cCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH
Confidence            46789999996 56677888888888886543 355666666543

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.75  E-value=0.014  Score=48.44  Aligned_cols=47  Identities=13%  Similarity=0.168  Sum_probs=34.0

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHh-cCCcEEEEeeCCCCCCCh
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIY-SNSTRFALACNVSSKIIE  156 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~-~~~~~~I~~~~~~~~l~~  156 (331)
                      .+++++++||. ..+.......+.+.+.+. .....+|+++.+...+..
T Consensus       144 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~~~~  192 (207)
T PRK13539        144 SNRPIWILDEPTAALDAAAVALFAELIRAHLAQGGIVIAATHIPLGLPG  192 (207)
T ss_pred             cCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCchhhcc
Confidence            35799999996 577788888888888754 234567777777655543

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.73  E-value=0.0016  Score=51.33  Aligned_cols=30  Identities=47%  Similarity=0.633  Sum_probs=24.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      .++++|.||+||||+++.+. .+     +..++.++
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~l-----g~~~i~l~   31 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-EL-----GYKVIELN   31 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-Hh-----CCceeeHH
Confidence            37899999999999999999 66     55566543

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=96.73  E-value=0.0044  Score=50.75  Aligned_cols=141  Identities=21%  Similarity=0.253  Sum_probs=63.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCC-CCCCceEEEEeCCC----CC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTL-PPGKHKVVVLDEAD----SM  123 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~-~~~~~~vviide~d----~l  123 (331)
                      ++|+||+|+|||.+|-.+++.+     +.+++..+.--...      .+......|... ..+-++ +++||-.    .+
T Consensus         4 ~~i~GpT~tGKt~~ai~lA~~~-----g~pvI~~Driq~y~------~l~v~Sgrp~~~el~~~~R-iyL~~r~l~~G~i   71 (233)
T PF01745_consen    4 YLIVGPTGTGKTALAIALAQKT-----GAPVISLDRIQCYP------ELSVGSGRPTPSELKGTRR-IYLDDRPLSDGII   71 (233)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH-------EEEEE-SGGG-G------GGTTTTT---SGGGTT-EE-EES----GGG-S-
T ss_pred             EEEECCCCCChhHHHHHHHHHh-----CCCEEEecceeccc------ccccccCCCCHHHHcccce-eeeccccccCCCc
Confidence            5999999999999999999999     66666654321100      000000000000 023344 7777532    12


Q ss_pred             C-HHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcc-------cceeeecCCCHHHHHHHHHHHHHhc--CCCCCHH
Q 020071          124 T-AGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSR-------CAIVRFSRLSDEEILSRLMVVVQEE--KVPYVPE  193 (331)
Q Consensus       124 ~-~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr-------~~~i~~~~~~~~~~~~~l~~~~~~~--~~~i~~~  193 (331)
                      + +++.+.|...+.+....--+|+-.-+.+-+....+++       ..+..++-++.+.......+++++-  .-.-.+.
T Consensus        72 ~a~ea~~~Li~~v~~~~~~~~~IlEGGSISLl~~m~~~~~w~~~f~w~i~rl~l~d~~~f~~ra~~Rv~~ML~p~~~~~S  151 (233)
T PF01745_consen   72 NAEEAHERLISEVNSYSAHGGLILEGGSISLLNCMAQDPYWSLDFRWHIRRLRLPDEEVFMARAKRRVRQMLRPDSSGPS  151 (233)
T ss_dssp             -HHHHHHHHHHHHHTTTTSSEEEEEE--HHHHHHHHH-TTTSSSSEEEEEE-----HHHHHHHHHHHHHHHHS--SSS--
T ss_pred             CHHHHHHHHHHHHHhccccCceEEeCchHHHHHHHHhcccccCCCeEEEEEEECCChHHHHHHHHHHHHHhcCCCCCCCc
Confidence            2 3456677778877777666777655444333333332       2334555555555555555555431  1112334


Q ss_pred             HHHHHHHh
Q 020071          194 GLEAIIFT  201 (331)
Q Consensus       194 ~~~~l~~~  201 (331)
                      .++.++..
T Consensus       152 ll~EL~~l  159 (233)
T PF01745_consen  152 LLEELVAL  159 (233)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555543

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=96.73  E-value=0.014  Score=43.44  Aligned_cols=21  Identities=38%  Similarity=0.575  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++|.|++|+|||++.+.+...
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999974

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>PLN02459 probable adenylate kinase

Probab=96.73  E-value=0.029  Score=47.99  Aligned_cols=23  Identities=39%  Similarity=0.543  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++|.||||+||+|.+..+++.+
T Consensus        31 ~ii~~G~PGsGK~T~a~~la~~~   53 (261)
T PLN02459         31 NWVFLGCPGVGKGTYASRLSKLL   53 (261)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47889999999999999999987

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=96.71  E-value=0.013  Score=46.69  Aligned_cols=97  Identities=20%  Similarity=0.224  Sum_probs=50.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC----CCCceEEeecC-------CCCChHhHHHHHHHHHhcccCCCCCCceEEEE
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN----YREAVMELNAS-------DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVL  117 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~-------~~~~~~~i~~~i~~~~~~~~~~~~~~~~vvii  117 (331)
                      +++.|++|+|||++...+...-....    .+.....++..       +..+.+..+.....+..      .++.-++++
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~------~ad~ii~V~   75 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNSVAIPTQDAIMELLEIGGSQNLRKYWKRYLS------GSQGLIFVV   75 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcceEEEeeCCeEEEEEECCCCcchhHHHHHHHh------hCCEEEEEE
Confidence            68999999999999999987532211    11222222221       11222222222222221      344567777


Q ss_pred             eCCCCCC-HHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          118 DEADSMT-AGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       118 de~d~l~-~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      |-.+..+ ......+.+++... .+++++++.|..+
T Consensus        76 D~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~D  110 (164)
T cd04162          76 DSADSERLPLARQELHQLLQHP-PDLPLVVLANKQD  110 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcC
Confidence            7555432 12233344444333 5677888887654

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.71  E-value=0.035  Score=43.77  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         3 v~~vG~~~~GKTsl~~~~~~~~   24 (162)
T cd04106           3 VIVVGNGNVGKSSMIQRFVKGI   24 (162)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998753

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.70  E-value=0.017  Score=49.92  Aligned_cols=26  Identities=38%  Similarity=0.727  Sum_probs=22.6

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +.+.|+|++|+|||+++..++..+..
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~  101 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHG  101 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            34899999999999999999888754

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=96.69  E-value=0.013  Score=47.25  Aligned_cols=97  Identities=20%  Similarity=0.317  Sum_probs=49.4

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCC-----------------CCceEEeecCCCCChHhHHH-HHHHHHhcccCCC
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNY-----------------REAVMELNASDDRGIDVVRN-KIKMFAQKKVTLP  108 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----------------~~~~~~~~~~~~~~~~~i~~-~i~~~~~~~~~~~  108 (331)
                      +.++|.||.|+|||++-..+...-..+..                 ...++.+.+.     ..++. .+.......    
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~e~n~~~~~~~~~~~~~~lvD~PGH-----~rlr~~~~~~~~~~~----   74 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSMENNIAYNVNNSKGKKLRLVDIPGH-----PRLRSKLLDELKYLS----   74 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B---SSEEEECCGSSTCGTCECEEEETT------HCCCHHHHHHHHHHG----
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccccCCceEEeecCCCCEEEEEECCCc-----HHHHHHHHHhhhchh----
Confidence            46999999999999998888876322110                 0111222111     22222 222211111    


Q ss_pred             CCCceEEEEeCCCCCC---HHHHHHHHHHHHHhc---CCcEEEEeeCCCCC
Q 020071          109 PGKHKVVVLDEADSMT---AGAQQALRRTMEIYS---NSTRFALACNVSSK  153 (331)
Q Consensus       109 ~~~~~vviide~d~l~---~~~~~~Ll~~le~~~---~~~~~I~~~~~~~~  153 (331)
                      ..+.-|++||-.. ..   .+..+.|..+|-.+.   ..++++++||..+.
T Consensus        75 ~~k~IIfvvDSs~-~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl  124 (181)
T PF09439_consen   75 NAKGIIFVVDSST-DQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDL  124 (181)
T ss_dssp             GEEEEEEEEETTT-HHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTS
T ss_pred             hCCEEEEEEeCcc-chhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccc
Confidence            2345677777542 22   345667777776544   67788888987554

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.69  E-value=0.033  Score=44.98  Aligned_cols=41  Identities=12%  Similarity=0.088  Sum_probs=30.0

Q ss_pred             ceEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCcEEEEeeCCCC
Q 020071          112 HKVVVLDEA-DSMTAGAQQALRRTMEIYS-NSTRFALACNVSS  152 (331)
Q Consensus       112 ~~vviide~-d~l~~~~~~~Ll~~le~~~-~~~~~I~~~~~~~  152 (331)
                      .+++++||. ..+.......+.+.+.+.. ....+|+++.+..
T Consensus       108 p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~  150 (176)
T cd03238         108 GTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLD  150 (176)
T ss_pred             CCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            789999996 5677888888888877643 3456777776654

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.69  E-value=0.041  Score=49.58  Aligned_cols=49  Identities=27%  Similarity=0.529  Sum_probs=37.9

Q ss_pred             HHHHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           34 VARLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        34 ~~~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      +.+|.+.+-.|-.|.  +|+-|.||.||||+...++..+....   .+.++.+.
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsGE  129 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSGE  129 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeCC
Confidence            357788888887766  69999999999999999999886432   55666544

>KOG2383 consensus Predicted ATPase [General function prediction only]

Probab=96.68  E-value=0.015  Score=51.93  Aligned_cols=112  Identities=19%  Similarity=0.281  Sum_probs=62.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee-----------------cC----CCC--ChHhHHHHHHHHHhccc
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELN-----------------AS----DDR--GIDVVRNKIKMFAQKKV  105 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~-----------------~~----~~~--~~~~i~~~i~~~~~~~~  105 (331)
                      ++|||..|+|||++--.+...+.+ .+...=+.+.                 +.    ...  ..+.+.-+..+++    
T Consensus       117 lYlYG~VGcGKTmLMDlFy~~~~~-i~rkqRvHFh~fM~~VH~r~H~~k~~~~~~~~~~a~~~~~Dpl~~vA~eIa----  191 (467)
T KOG2383|consen  117 LYLYGSVGCGKTMLMDLFYDALPP-IWRKQRVHFHGFMLSVHKRMHELKQEQGAEKPGYAKSWEIDPLPVVADEIA----  191 (467)
T ss_pred             EEEecccCcchhHHHHHHhhcCCc-hhhhhhhhHHHHHHHHHHHHHHHHHhccccCccccccccCCccHHHHHHHh----
Confidence            899999999999999988876643 1111100000                 00    000  0111111222222    


Q ss_pred             CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcC-CcEEEEeeCCC-CC-------------CChhhhcccceeeecC
Q 020071          106 TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSN-STRFALACNVS-SK-------------IIEPIQSRCAIVRFSR  169 (331)
Q Consensus       106 ~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~-~~~~I~~~~~~-~~-------------l~~~l~sr~~~i~~~~  169 (331)
                          .+..++.+||++--.-...=.|.++++..-. .++++.|+|.. +.             ....|..||.++.+..
T Consensus       192 ----~ea~lLCFDEfQVTDVADAmiL~rLf~~Lf~~GvVlvATSNR~P~dLYknGlQR~~F~PfI~~L~~rc~vi~ldS  266 (467)
T KOG2383|consen  192 ----EEAILLCFDEFQVTDVADAMILKRLFEHLFKNGVVLVATSNRAPEDLYKNGLQRENFIPFIALLEERCKVIQLDS  266 (467)
T ss_pred             ----hhceeeeechhhhhhHHHHHHHHHHHHHHHhCCeEEEEeCCCChHHHhhcchhhhhhhhHHHHHHHhheEEecCC
Confidence                2356999999987766555566677765433 45555555542 21             2355677888876654

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.66  E-value=0.011  Score=47.35  Aligned_cols=36  Identities=33%  Similarity=0.401  Sum_probs=27.4

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      +-+.|.|++|+||||+++.+...+...+....++..
T Consensus         7 ~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~   42 (173)
T PRK10751          7 PLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKH   42 (173)
T ss_pred             eEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEE
Confidence            336999999999999999999998654444444443

>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=96.66  E-value=0.0048  Score=54.60  Aligned_cols=49  Identities=24%  Similarity=0.305  Sum_probs=38.9

Q ss_pred             CCC-ccccCHHHHHHHHHHHHcC-----CCCe-EEEeCCCCccHHHHHHHHHHHhc
Q 020071           23 KVC-DIVGNLDAVARLGIIARDG-----NMPN-LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        23 ~~~-~~ig~~~~~~~l~~~l~~~-----~~~~-~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .|+ ++.|.++.+..+...++..     .... ++|.||.|+|||++++.+.+.+.
T Consensus        58 ~f~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le  113 (358)
T PF08298_consen   58 FFEDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLE  113 (358)
T ss_pred             CccccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhh
Confidence            455 8999999998877776542     2223 69999999999999999999884

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

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.66  E-value=0.011  Score=47.90  Aligned_cols=42  Identities=14%  Similarity=0.209  Sum_probs=30.7

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSN--STRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~--~~~~I~~~~~~  151 (331)
                      .+++++++||. ..+.......+.+++.+...  +..+|+++.+.
T Consensus       117 ~~p~llilDEP~~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~  161 (178)
T cd03229         117 MDPDVLLLDEPTSALDPITRREVRALLKSLQAQLGITVVLVTHDL  161 (178)
T ss_pred             CCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            46789999996 56778888888888876543  35667776654

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.64  E-value=0.006  Score=54.04  Aligned_cols=39  Identities=23%  Similarity=0.318  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           31 LDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        31 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++....|..++..+.  +++++|++|+||||+++++...+.
T Consensus       131 ~~~~~~L~~~v~~~~--nilI~G~tGSGKTTll~aL~~~i~  169 (323)
T PRK13833        131 EAQASVIRSAIDSRL--NIVISGGTGSGKTTLANAVIAEIV  169 (323)
T ss_pred             HHHHHHHHHHHHcCC--eEEEECCCCCCHHHHHHHHHHHHh
Confidence            455567777777654  699999999999999999998873

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.63  E-value=0.002  Score=52.07  Aligned_cols=23  Identities=35%  Similarity=0.462  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+||||+++.+++.+.
T Consensus         5 i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           5 IILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             EEEECCCCCCHHHHHHHHHHhhC
Confidence            79999999999999999999873

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.62  E-value=0.0056  Score=53.49  Aligned_cols=24  Identities=42%  Similarity=0.693  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++|.||+|+||||++..++..+..
T Consensus       197 i~~vGptGvGKTTt~~kLa~~~~~  220 (282)
T TIGR03499       197 IALVGPTGVGKTTTLAKLAARFVL  220 (282)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            699999999999999999988743

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.62  E-value=0.035  Score=49.40  Aligned_cols=64  Identities=16%  Similarity=0.149  Sum_probs=41.1

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCC----CCCCceEEeecCCCCChHhHHHHHHH
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGP----NYREAVMELNASDDRGIDVVRNKIKM   99 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~~~~~~~i~~~i~~   99 (331)
                      .+...+.+|-.+.  +.++||+|+|||+++..++.....+    +.+..++.++.......+.+.+..+.
T Consensus        90 ~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~  159 (317)
T PRK04301         90 ELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEA  159 (317)
T ss_pred             HHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHH
Confidence            3444454443333  5999999999999999998765321    11346777777665455666655543

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=96.62  E-value=0.02  Score=47.29  Aligned_cols=22  Identities=18%  Similarity=0.445  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||.|+||||+.+.++...
T Consensus        28 ~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          28 ILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             EEEECCCCCChHHHHHHHHHHH
Confidence            6999999999999999998644

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.62  E-value=0.0023  Score=49.83  Aligned_cols=27  Identities=37%  Similarity=0.585  Sum_probs=23.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceE
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVM   80 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~   80 (331)
                      +-+.||||+||||+++.+++.+     +.+++
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~-----gl~~v   29 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHL-----GLKLV   29 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHh-----CCcee
Confidence            5789999999999999999998     55554

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.61  E-value=0.0061  Score=54.67  Aligned_cols=30  Identities=23%  Similarity=0.406  Sum_probs=24.9

Q ss_pred             CCCCeEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           44 GNMPNLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        44 ~~~~~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      |+.-..+++||+|+|||++++.+++.+..+
T Consensus       131 GkGQR~LIvG~pGtGKTTLl~~la~~i~~~  160 (380)
T PRK12608        131 GKGQRGLIVAPPRAGKTVLLQQIAAAVAAN  160 (380)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            333358999999999999999999988654

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.61  E-value=0.0025  Score=53.72  Aligned_cols=22  Identities=36%  Similarity=0.558  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||||+||||+++.+++.+
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999999988

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.58  E-value=0.014  Score=48.72  Aligned_cols=43  Identities=12%  Similarity=0.300  Sum_probs=32.6

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      .++.++++||. ..+.......+.+++.+......+|+++.+..
T Consensus       147 ~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~tii~vsH~~~  190 (211)
T cd03264         147 GDPSILIVDEPTAGLDPEERIRFRNLLSELGEDRIVILSTHIVE  190 (211)
T ss_pred             cCCCEEEEcCCcccCCHHHHHHHHHHHHHHhCCCEEEEEcCCHH
Confidence            46899999996 56778888899999987655566777776543

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PLN02840 tRNA dimethylallyltransferase

Probab=96.58  E-value=0.031  Score=51.14  Aligned_cols=23  Identities=39%  Similarity=0.752  Sum_probs=21.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|.||+|+|||+++..+++.+.
T Consensus        24 i~I~GptgsGKTtla~~La~~~~   46 (421)
T PLN02840         24 IVISGPTGAGKSRLALELAKRLN   46 (421)
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC
Confidence            79999999999999999999984

>TIGR00959 ffh signal recognition particle protein

Probab=96.55  E-value=0.028  Score=51.90  Aligned_cols=25  Identities=40%  Similarity=0.569  Sum_probs=22.0

Q ss_pred             Ce-EEEeCCCCccHHHHHHHHHHHhc
Q 020071           47 PN-LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        47 ~~-~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      |. ++++|++|+||||++..++..+.
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            45 69999999999999999998864

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK07667 uridine kinase; Provisional

Probab=96.54  E-value=0.0057  Score=50.25  Aligned_cols=25  Identities=28%  Similarity=0.333  Sum_probs=22.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +.+.|++|+||||+++.+++.+...
T Consensus        20 IgI~G~~gsGKStla~~L~~~l~~~   44 (193)
T PRK07667         20 LGIDGLSRSGKTTFVANLKENMKQE   44 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhC
Confidence            6999999999999999999998644

>TIGR00643 recG ATP-dependent DNA helicase RecG

Probab=96.54  E-value=0.018  Score=56.32  Aligned_cols=37  Identities=22%  Similarity=0.158  Sum_probs=26.5

Q ss_pred             cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHH
Q 020071           29 GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILA   65 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~   65 (331)
                      .|.+++..+...+.+...-+.++.||.|+|||.++..
T Consensus       239 ~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l  275 (630)
T TIGR00643       239 AQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAAL  275 (630)
T ss_pred             HHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHH
Confidence            3666666666665554434589999999999987643

>TIGR00416 sms DNA repair protein RadA

Probab=96.54  E-value=0.018  Score=53.70  Aligned_cols=48  Identities=27%  Similarity=0.515  Sum_probs=34.2

Q ss_pred             HHHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           35 ARLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        35 ~~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      ..|.+.+..|-.+.  ++++|+||+|||+++..++..+...+  ..++.++.
T Consensus        81 ~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g--~kvlYvs~  130 (454)
T TIGR00416        81 GELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQ--MKVLYVSG  130 (454)
T ss_pred             HHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcC--CcEEEEEC
Confidence            46777776665554  69999999999999999988764332  24445444

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	331
1sxj_B	323	Crystal Structure Of The Eukaryotic Clamp Loader (R		1e-115
1iqp_A	327	Crystal Structure Of The Clamp Loader Small Subunit		2e-74
2chq_A	319	Replication Factor C Adpnp Complex Length = 319		2e-67
2chg_A	226	Replication Factor C Domains 1 And 2 Length = 226		3e-56
1sxj_C	340	Crystal Structure Of The Eukaryotic Clamp Loader (R		9e-54
1sxj_D	353	Crystal Structure Of The Eukaryotic Clamp Loader (R		1e-51
1sxj_E	354	Crystal Structure Of The Eukaryotic Clamp Loader (R		3e-21
3u5z_B	324	Structure Of T4 Bacteriophage Clamp Loader Bound To		7e-17
1sxj_A	516	Crystal Structure Of The Eukaryotic Clamp Loader (R		9e-16
1njg_A	250	Nucleotide-Free Form Of An Isolated E. Coli Clamp L		3e-08
3glf_B	395	Crystal Structure Of The Ecoli Clamp Loader Bound T		5e-08
1xxi_B	368	Adp Bound E. Coli Clamp Loader Complex Length = 368		5e-08
3glh_B	376	Crystal Structure Of The E. Coli Clamp Loader Bound		5e-08
1jr3_A	373	Crystal Structure Of The Processivity Clamp Loader		6e-08
3glg_B	395	Crystal Structure Of A Mutant (Gammat157a) E. Coli		8e-08
3pvs_A	447	Structure And Biochemical Activities Of Escherichia		4e-07

>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 323

Iteration: 1
 Score =  410 bits (1054), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 194/314 (61%), Positives = 248/314 (78%), Gaps = 5/314 (1%)
Query: 10  AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHE 69
           +  +PWVEKYRP  + DIVGN + + RL  IA+DGNMP++I++G PG GKTTS+  LAHE
Sbjct: 6   SLQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHE 65
Query: 70  LLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQ 129
           LLG +Y + V+ELNASDDRGIDVVRN+IK FAQKK+ LPPGKHK+V+LDEADSMTAGAQQ
Sbjct: 66  LLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQ 125
Query: 130 ALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVP 189
           ALRRTME+YSNSTRFA ACN S+KIIEP+QS+CAI+R+S+LSDE++L RL+ +++ E V 
Sbjct: 126 ALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVK 185
Query: 190 YVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLE 249
           Y  +GLEAIIFTA+GDMRQA+NNLQ+T +G   VN +NVFK+ D PHPL VK M   +L 
Sbjct: 186 YTNDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKM---LLA 242
Query: 250 GKFDDACSGLK-QLYDLGYSPTDIITTLFRIIKNY-EMAEHLKLEFMKEAGFAHMRICDG 307
              +D+   L+  L+  GYS  DI+TT FR+ KN  ++ E ++LE +KE G  HMRI +G
Sbjct: 243 SNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEG 302
Query: 308 VGSYLQLCGLLAKL 321
           VG+YLQL  +LAK+
Sbjct: 303 VGTYLQLASMLAKI 316

>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From Pyrococcus Furiosus Length = 327

Iteration: 1
 Score =  275 bits (703), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 143/314 (45%), Positives = 202/314 (64%), Gaps = 6/314 (1%)
Query: 14  PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP 73
           PWVEKYRP ++ DIVG    V RL    + G+MP+L+ AGPPG GKTT+ LALA EL G 
Sbjct: 14  PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE 73
Query: 74  NYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPG--KHKVVVLDEADSMTAGAQQAL 131
           N+R   +ELNASD+RGI+V+R K+K FA+ K   P G    K++ LDEAD++T  AQQAL
Sbjct: 74  NWRHNFLELNASDERGINVIREKVKEFARTK---PIGGASFKIIFLDEADALTQDAQQAL 130
Query: 132 RRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV 191
           RRTME++S++ RF L+CN SSKIIEPIQSRCAI RF  L DE+I  RL  + + E +   
Sbjct: 131 RRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELT 190
Query: 192 PEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGK 251
            EGL+AI++ A+GDMR+A+N LQA  +  + +  ENVF V  +  P  ++ M+   L+G 
Sbjct: 191 EEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMMLLALKGN 250
Query: 252 FDDACSGLKQ-LYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
           F  A   L++ L   G S  D++  + + + N  + E  K+    + G  + R+ +G   
Sbjct: 251 FLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANE 310
Query: 311 YLQLCGLLAKLSIV 324
            +QL  LLA+ +++
Sbjct: 311 IIQLEALLAQFTLI 324

>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex Length = 319

Iteration: 1
 Score =  252 bits (644), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 131/313 (41%), Positives = 197/313 (62%), Gaps = 6/313 (1%)
Query: 15  WVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN 74
           WVEKYRP  + ++VG  + + RL       N+P+L+ +GPPGTGKT + +ALA +L G N
Sbjct: 7   WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 75  YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPG--KHKVVVLDEADSMTAGAQQALR 132
           +R+  +E+NASD+RGIDVVR+KIK FA+   T P G    K++ LDEAD++TA AQ ALR
Sbjct: 67  WRDNFIEMNASDERGIDVVRHKIKEFAR---TAPIGGAPFKIIFLDEADALTADAQAALR 123
Query: 133 RTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVP 192
           RTME+YS S RF L+CN  S+IIEPIQSRCA+ RF  +  E +  RL+ + ++E V    
Sbjct: 124 RTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITE 183
Query: 193 EGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKF 252
           +GLEA+I+ + GD R+A+N LQ   +    V+ + ++++     P  +  +++  L+G F
Sbjct: 184 DGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTALKGNF 243
Query: 253 DDACSGLKQLY-DLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSY 311
            +A   L +L  + G S  DI+  LFR I +  + + LK++ + + G    R+ +G    
Sbjct: 244 MEARELLDRLMVEYGMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGANER 303
Query: 312 LQLCGLLAKLSIV 324
           +QL   LA LS +
Sbjct: 304 IQLDAYLAYLSTL 316

>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2 Length = 226

Iteration: 1
 Score =  215 bits (547), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 105/219 (47%), Positives = 151/219 (68%), Gaps = 5/219 (2%)
Query: 15  WVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN 74
           WVEKYRP  + ++VG  + + RL       N+P+L+ +GPPGTGKT + +ALA +L G N
Sbjct: 7   WVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGEN 66
Query: 75  YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPG--KHKVVVLDEADSMTAGAQQALR 132
           +R+  +E+NASD+RGIDVVR+KIK FA+   T P G    K++ LDEAD++TA AQ ALR
Sbjct: 67  WRDNFIEMNASDERGIDVVRHKIKEFAR---TAPIGGAPFKIIFLDEADALTADAQAALR 123
Query: 133 RTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVP 192
           RTME+YS S RF L+CN  S+IIEPIQSRCA+ RF  +  E +  RL+ + ++E V    
Sbjct: 124 RTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITE 183
Query: 193 EGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKV 231
           +GLEA+I+ + GD R+A+N LQ   +    V+ + ++++
Sbjct: 184 DGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQI 222

>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 340

Iteration: 1
 Score =  207 bits (526), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 117/339 (34%), Positives = 189/339 (55%), Gaps = 10/339 (2%)
Query: 1   MAXXXXXXXAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKT 60
           M+         ++PWVEKYRP  + ++ G  + +  +     +G +P+L+  GPPGTGKT
Sbjct: 1   MSTSTEKRSKENLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKT 60
Query: 61  TSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEA 120
           ++I+ALA E+ G NY   V+ELNASDDRGIDVVRN+IK FA  +     G  K+++LDEA
Sbjct: 61  STIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKG-FKLIILDEA 119
Query: 121 DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLM 180
           D+MT  AQ ALRR +E Y+ +TRF +  N + K+   + S+C   RF  L  E I  R+ 
Sbjct: 120 DAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIA 179
Query: 181 VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQEN-----VFKVCDQP 235
            V+  EK+   P   +A+I  ++GDMR+ LN LQ+  +     +++      +++ C  P
Sbjct: 180 NVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAP 239
Query: 236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDL-GYSPTDIITTLFRIIKNYEMA-EHLKLEF 293
            P  +K +++++LE  +  A   L ++    G +  D+I  + +I+++YE+  E  ++  
Sbjct: 240 RPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHL 299
Query: 294 MKEAGFAHMRICDGVGSYLQLCGLLA--KLSIVRETAKA 330
           + +       I  G    +Q   ++   K S   ET KA
Sbjct: 300 LTKLADIEYSISKGGNDQIQGSAVIGAIKASFENETVKA 338

>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 353

Iteration: 1
 Score =  200 bits (508), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 118/328 (35%), Positives = 179/328 (54%), Gaps = 21/328 (6%)
Query: 14  PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP 73
           PWVEKYRP  + ++     AV  L    +  N+P+++  GPPGTGKT++ILAL  EL GP
Sbjct: 26  PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 85
Query: 74  NY-REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKH----------KVVVLDEADS 122
           +  +  ++ELNASD+RGI +VR K+K FA+  V+  P KH          K+++LDEADS
Sbjct: 86  DLMKSRILELNASDERGISIVREKVKNFARLTVS-KPSKHDLENYPCPPYKIIILDEADS 144
Query: 123 MTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVV 182
           MTA AQ ALRRTME YS  TRF L CN  ++II+P+ S+C+  RF  L     + RL  +
Sbjct: 145 MTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFI 204
Query: 183 VQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFV-NQENVFKVCDQ------P 235
            ++E V      LE I+  + GD+R+ +  LQ+   G +++ + +N+     +      P
Sbjct: 205 SEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVP 264
Query: 236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFR-IIKNYEMAEHLKLEFM 294
           H + ++ +V  V  G FD+    +      G+S   ++  L    I N     + K +  
Sbjct: 265 HDILIE-IVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQIS 323
Query: 295 KEAGFAHMRICDGVGSYLQLCGLLAKLS 322
                   R+ +G   ++QL  LL K+S
Sbjct: 324 WLLFTTDSRLNNGTNEHIQLLNLLVKIS 351

>pdb|1SXJ|E Chain E, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 354

Iteration: 1
 Score = 99.4 bits (246), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 75/236 (31%), Positives = 121/236 (51%), Gaps = 35/236 (14%)
Query: 15  WVEKYRPTKVCDIVGNLDAVARLGIIA-RDGNMPNLILAGPPGTGKTTSILALAHELLGP 73
           WV+KYRP  +  +  N +    L  ++ +  ++P+L+L GP GTGK T  +AL   + GP
Sbjct: 4   WVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGP 63
Query: 74  N-YREAV-----------------------MELNASDDRGID--VVRNKIKMFAQ-KKVT 106
             YR  +                       +E+  SD    D  V++  +K  AQ ++V 
Sbjct: 64  GVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD 123
Query: 107 LPPGK------HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQS 160
               K      +K V+++EA+S+T  AQ ALRRTME YS + R  + C+  S II PI+S
Sbjct: 124 FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKS 183
Query: 161 RCAIVRFSRLSDEEILSRLMVVVQEEKVPY-VPEGLEAIIFTADGDMRQALNNLQA 215
           +C ++R    SD EI + L  VV  E++     + L+ I   ++G++R +L  L++
Sbjct: 184 QCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLES 239

>pdb|3U5Z|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4 Clamp, Primer-Template Dna, And Atp Analog Length = 324

Iteration: 1
 Score = 84.3 bits (207), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 60/181 (33%), Positives = 94/181 (51%), Gaps = 17/181 (9%)
Query: 17  EKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGP-PGTGKTTSILALAHELLGPNY 75
           +KYRP+ + + +           I   G +P++IL  P PGTGKTT   AL H++     
Sbjct: 18  QKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV----- 72
Query: 76  REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEAD-SMTAGAQQALRRT 134
              +M +N SD + ID VR  +  FA        G+ KV+V+DE D S  A +Q+ LR  
Sbjct: 73  NADMMFVNGSDCK-IDFVRGPLTNFASAASF--DGRQKVIVIDEFDRSGLAESQRHLRSF 129
Query: 135 MEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDE-------EILSRLMVVVQEEK 187
           ME YS++    +  N    II+P+QSRC ++ F + +DE       +++ RL  + + E 
Sbjct: 130 MEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMMKQMIRRLTEICKHEG 189
Query: 188 V 188
           +
Sbjct: 190 I 190

>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader (Replication Factor C, Rfc) Bound To The Dna Sliding Clamp (Proliferating Cell Nuclear Antigen, Pcna) Length = 516

Iteration: 1
 Score = 80.9 bits (198), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 69/253 (27%), Positives = 109/253 (43%), Gaps = 35/253 (13%)
Query: 10  AYDIPWVEKYRPTKVCDIVGNLDAVARLGII---------------ARDGN--MPNLILA 52
           A D  W  KY PT +  + GN  +V +L                   +DG+      +L 
Sbjct: 24  ASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLY 83
Query: 53  GPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIK-----------MFA 101
           GPPG GKTT+   +A EL        ++E NASD R   ++   +K              
Sbjct: 84  GPPGIGKTTAAHLVAQEL-----GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKH 138
Query: 102 QKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI-YSNSTRFALACNVSS-KIIEPIQ 159
            ++     GKH V+++DE D M+ G +  + +  +     ST   L CN  +   + P  
Sbjct: 139 NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFD 198
Query: 160 SRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSG 219
             C  ++F R     I SRLM +   EK    P  ++ +I T  GD+RQ +N L    + 
Sbjct: 199 RVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTT 258
Query: 220 FRFVNQENVFKVC 232
            + +N EN+ ++ 
Sbjct: 259 TKTINHENINEIS 271

>pdb|1NJG|A Chain A, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader Gamma Subunit Length = 250

Iteration: 1
 Score = 56.2 bits (134), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 61/234 (26%), Positives = 101/234 (43%), Gaps = 28/234 (11%)
Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHEL------ 70
           K+RP    D+VG    +  L      G + +  L +G  G GKT+    LA  L      
Sbjct: 16  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 75
Query: 71  ------LGPNYREA-------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
                 +  N RE        ++E++A+    ++  R+ +       V   P  G+ KV 
Sbjct: 76  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLD-----NVQYAPARGRFKVY 130
Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           ++DE   ++  +  AL +T+E      +F LA     K+   I SRC       L  E+I
Sbjct: 131 LIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQI 190
Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN-NLQATYSGFRFVNQENV 228
             +L  ++ EE + + P  L+ +   A+G +R AL+   QA  SG   V+ + V
Sbjct: 191 RHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAV 244

>pdb|3GLF|B Chain B, Crystal Structure Of The Ecoli Clamp Loader Bound To Primer-template Dna Length = 395

Iteration: 1
 Score = 55.5 bits (132), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 59/225 (26%), Positives = 97/225 (43%), Gaps = 28/225 (12%)
Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHEL------ 70
           K+RP    D+VG    +  L      G + +  L +G  G GKT+    LA  L      
Sbjct: 31  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 90
Query: 71  ------LGPNYREA-------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
                 +  N RE        ++E++A+    ++  R+ +       V   P  G+ KV 
Sbjct: 91  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLD-----NVQYAPARGRFKVY 145
Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           ++DE   ++  +  AL +T+E      +F LA     K+   I SRC       L  E+I
Sbjct: 146 LIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQI 205
Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN-NLQATYSG 219
             +L  ++ EE + + P  L+ +   A+G +R AL+   QA  SG
Sbjct: 206 RHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASG 250

>pdb|1XXI|B Chain B, Adp Bound E. Coli Clamp Loader Complex Length = 368

Iteration: 1
 Score = 55.1 bits (131), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 59/225 (26%), Positives = 97/225 (43%), Gaps = 28/225 (12%)
Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHEL------ 70
           K+RP    D+VG    +  L      G + +  L +G  G GKT+    LA  L      
Sbjct: 9   KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 71  ------LGPNYREA-------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
                 +  N RE        ++E++A+    ++  R+ +       V   P  G+ KV 
Sbjct: 69  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLD-----NVQYAPARGRFKVY 123
Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           ++DE   ++  +  AL +T+E      +F LA     K+   I SRC       L  E+I
Sbjct: 124 LIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQI 183
Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN-NLQATYSG 219
             +L  ++ EE + + P  L+ +   A+G +R AL+   QA  SG
Sbjct: 184 RHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASG 228

>pdb|3GLH|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi Peptide Length = 376

Iteration: 1
 Score = 55.1 bits (131), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 59/225 (26%), Positives = 97/225 (43%), Gaps = 28/225 (12%)
Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHEL------ 70
           K+RP    D+VG    +  L      G + +  L +G  G GKT+    LA  L      
Sbjct: 12  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 71
Query: 71  ------LGPNYREA-------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
                 +  N RE        ++E++A+    ++  R+ +       V   P  G+ KV 
Sbjct: 72  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLD-----NVQYAPARGRFKVY 126
Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           ++DE   ++  +  AL +T+E      +F LA     K+   I SRC       L  E+I
Sbjct: 127 LIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQI 186
Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN-NLQATYSG 219
             +L  ++ EE + + P  L+ +   A+G +R AL+   QA  SG
Sbjct: 187 RHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASG 231

>pdb|1JR3|A Chain A, Crystal Structure Of The Processivity Clamp Loader Gamma Complex Of E. Coli Dna Polymerase Iii Length = 373

Iteration: 1
 Score = 55.1 bits (131), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 59/225 (26%), Positives = 97/225 (43%), Gaps = 28/225 (12%)
Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHEL------ 70
           K+RP    D+VG    +  L      G + +  L +G  G GKT+    LA  L      
Sbjct: 9   KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 68
Query: 71  ------LGPNYREA-------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
                 +  N RE        ++E++A+    ++  R+ +       V   P  G+ KV 
Sbjct: 69  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLD-----NVQYAPARGRFKVY 123
Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           ++DE   ++  +  AL +T+E      +F LA     K+   I SRC       L  E+I
Sbjct: 124 LIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQI 183
Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN-NLQATYSG 219
             +L  ++ EE + + P  L+ +   A+G +R AL+   QA  SG
Sbjct: 184 RHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASG 228

>pdb|3GLG|B Chain B, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp Loader Bound To Primer-Template Dna Length = 395

Iteration: 1
 Score = 54.7 bits (130), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 61/234 (26%), Positives = 101/234 (43%), Gaps = 28/234 (11%)
Query: 18  KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLIL-AGPPGTGKTTSILALAHEL------ 70
           K+RP    D+VG    +  L      G + +  L +G  G GKT+    LA  L      
Sbjct: 31  KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGI 90
Query: 71  ------LGPNYREA-------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP--GKHKVV 115
                 +  N RE        ++E++A+    ++  R+ +       V   P  G+ KV 
Sbjct: 91  TATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLD-----NVQYAPARGRFKVY 145
Query: 116 VLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEI 175
           ++DE   ++  +  AL +T+E      +F LA     K+   I SRC       L  E+I
Sbjct: 146 LIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATADPQKLPVTILSRCLQFHLKALDVEQI 205
Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN-NLQATYSGFRFVNQENV 228
             +L  ++ EE + + P  L+ +   A+G +R AL+   QA  SG   V+ + V
Sbjct: 206 RHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAV 259

>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli Mgsa Length = 447

Iteration: 1
 Score = 52.0 bits (123), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 54/211 (25%), Positives = 91/211 (43%), Gaps = 19/211 (9%)
Query: 14  PWVEKYRPTKVCDIVGNLDAVARLGIIARD---GNMPNLILAGPPGTGKTTSILALAHEL 70
           P   + RP  +   +G    +A    + R    G++ ++IL GPPGTGKTT    +A   
Sbjct: 15  PLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIAR-- 72
Query: 71  LGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
               Y  A +E  ++   G+  +R  I+   Q +     G+  ++ +DE        Q A
Sbjct: 73  ----YANADVERISAVTSGVKEIREAIERARQNRNA---GRRTILFVDEVHRFNKSQQDA 125
Query: 131 LRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPY 190
               +E  + +   A   N S ++   + SR  +     LS E+I   L   ++++   Y
Sbjct: 126 FLPHIEDGTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGY 185
Query: 191 ------VP-EGLEAIIFTADGDMRQALNNLQ 214
                 +P E   AI    +GD R+ALN L+
Sbjct: 186 GGQDIVLPDETRRAIAELVNGDARRALNTLE 216

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	331
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	1e-162
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	1e-161
2chq_A	319	Replication factor C small subunit; DNA-binding pr	1e-161
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	1e-159
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	1e-148
2chg_A	226	Replication factor C small subunit; DNA-binding pr	1e-128
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	1e-124
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	1e-122
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	1e-109
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	2e-21
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	3e-17
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	5e-16
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	8e-12
3pvs_A	447	Replication-associated recombination protein A; ma	1e-09
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	1e-09
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	1e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	5e-08
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	2e-06
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	5e-06
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	2e-05
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	7e-05
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	4e-04
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	4e-04

>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 Length = 323

 Score =  454 bits (1171), Expect = e-162
 Identities = 196/325 (60%), Positives = 251/325 (77%), Gaps = 5/325 (1%)

Query: 6   SSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILA 65
           S + +  +PWVEKYRP  + DIVGN + + RL  IA+DGNMP++I++G PG GKTTS+  
Sbjct: 2   SKTLSLQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHC 61

Query: 66  LAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA 125
           LAHELLG +Y + V+ELNASDDRGIDVVRN+IK FAQKK+ LPPGKHK+V+LDEADSMTA
Sbjct: 62  LAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA 121

Query: 126 GAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE 185
           GAQQALRRTME+YSNSTRFA ACN S+KIIEP+QS+CAI+R+S+LSDE++L RL+ +++ 
Sbjct: 122 GAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKL 181

Query: 186 EKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVR 245
           E V Y  +GLEAIIFTA+GDMRQA+NNLQ+T +G   VN +NVFK+ D PHPL VK M  
Sbjct: 182 EDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKM-- 239

Query: 246 NVLEGKFDDACSGL-KQLYDLGYSPTDIITTLFRIIKNY-EMAEHLKLEFMKEAGFAHMR 303
            +L    +D+   L   L+  GYS  DI+TT FR+ KN  ++ E ++LE +KE G  HMR
Sbjct: 240 -LLASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMR 298

Query: 304 ICDGVGSYLQLCGLLAKLSIVRETA 328
           I +GVG+YLQL  +LAK+  +   A
Sbjct: 299 ILEGVGTYLQLASMLAKIHKLNNKA 323

>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 Length = 327

 Score =  452 bits (1166), Expect = e-161
 Identities = 142/327 (43%), Positives = 205/327 (62%), Gaps = 2/327 (0%)

Query: 1   MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKT 60
           M+         + PWVEKYRP ++ DIVG    V RL    + G+MP+L+ AGPPG GKT
Sbjct: 1   MSEEIREVKVLEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKT 60

Query: 61  TSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEA 120
           T+ LALA EL G N+R   +ELNASD+RGI+V+R K+K FA+ K  +     K++ LDEA
Sbjct: 61  TAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTK-PIGGASFKIIFLDEA 119

Query: 121 DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLM 180
           D++T  AQQALRRTME++S++ RF L+CN SSKIIEPIQSRCAI RF  L DE+I  RL 
Sbjct: 120 DALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLR 179

Query: 181 VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHV 240
            + + E +    EGL+AI++ A+GDMR+A+N LQA  +  + +  ENVF V  +  P  +
Sbjct: 180 YIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDI 239

Query: 241 KNMVRNVLEGKFDDACSGLKQ-LYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGF 299
           + M+   L+G F  A   L++ L   G S  D++  + + + N  + E  K+    + G 
Sbjct: 240 REMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGE 299

Query: 300 AHMRICDGVGSYLQLCGLLAKLSIVRE 326
            + R+ +G    +QL  LLA+ +++ +
Sbjct: 300 YNFRLVEGANEIIQLEALLAQFTLIGK 326

>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 Length = 319

 Score =  452 bits (1164), Expect = e-161
 Identities = 128/316 (40%), Positives = 196/316 (62%), Gaps = 2/316 (0%)

Query: 12  DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL 71
              WVEKYRP  + ++VG  + + RL       N+P+L+ +GPPGTGKT + +ALA +L 
Sbjct: 4   FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF 63

Query: 72  GPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQAL 131
           G N+R+  +E+NASD+RGIDVVR+KIK FA+    +     K++ LDEAD++TA AQ AL
Sbjct: 64  GENWRDNFIEMNASDERGIDVVRHKIKEFARTA-PIGGAPFKIIFLDEADALTADAQAAL 122

Query: 132 RRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV 191
           RRTME+YS S RF L+CN  S+IIEPIQSRCA+ RF  +  E +  RL+ + ++E V   
Sbjct: 123 RRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKIT 182

Query: 192 PEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGK 251
            +GLEA+I+ + GD R+A+N LQ   +    V+ + ++++     P  +  +++  L+G 
Sbjct: 183 EDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTALKGN 242

Query: 252 FDDACSGLKQL-YDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGS 310
           F +A   L +L  + G S  DI+  LFR I +  + + LK++ + + G    R+ +G   
Sbjct: 243 FMEARELLDRLMVEYGMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGANE 302

Query: 311 YLQLCGLLAKLSIVRE 326
            +QL   LA LS + +
Sbjct: 303 RIQLDAYLAYLSTLAK 318

>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 Length = 340

 Score =  448 bits (1153), Expect = e-159
 Identities = 114/337 (33%), Positives = 189/337 (56%), Gaps = 8/337 (2%)

Query: 1   MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKT 60
           M++S+   S  ++PWVEKYRP  + ++ G  + +  +     +G +P+L+  GPPGTGKT
Sbjct: 1   MSTSTEKRSKENLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKT 60

Query: 61  TSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEA 120
           ++I+ALA E+ G NY   V+ELNASDDRGIDVVRN+IK FA  +     G  K+++LDEA
Sbjct: 61  STIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKG-FKLIILDEA 119

Query: 121 DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLM 180
           D+MT  AQ ALRR +E Y+ +TRF +  N + K+   + S+C   RF  L  E I  R+ 
Sbjct: 120 DAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIA 179

Query: 181 VVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRF-----VNQENVFKVCDQP 235
            V+  EK+   P   +A+I  ++GDMR+ LN LQ+  +         ++ + +++ C  P
Sbjct: 180 NVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAP 239

Query: 236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDL-GYSPTDIITTLFRIIKNYEM-AEHLKLEF 293
            P  +K +++++LE  +  A   L ++    G +  D+I  + +I+++YE+  E  ++  
Sbjct: 240 RPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHL 299

Query: 294 MKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETAKA 330
           + +       I  G    +Q   ++  +    E    
Sbjct: 300 LTKLADIEYSISKGGNDQIQGSAVIGAIKASFENETV 336

>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 Length = 353

 Score =  421 bits (1084), Expect = e-148
 Identities = 115/341 (33%), Positives = 178/341 (52%), Gaps = 17/341 (4%)

Query: 1   MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKT 60
           ++  ++  S    PWVEKYRP  + ++     AV  L    +  N+P+++  GPPGTGKT
Sbjct: 13  ISKLAAEQSLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKT 72

Query: 61  TSILALAHELLGPN-YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPG--------- 110
           ++ILAL  EL GP+  +  ++ELNASD+RGI +VR K+K FA+  V+ P           
Sbjct: 73  STILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCP 132

Query: 111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRL 170
            +K+++LDEADSMTA AQ ALRRTME YS  TRF L CN  ++II+P+ S+C+  RF  L
Sbjct: 133 PYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKAL 192

Query: 171 SDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRF------VN 224
                + RL  + ++E V      LE I+  + GD+R+ +  LQ+   G ++      + 
Sbjct: 193 DASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNIT 252

Query: 225 QENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFR-IIKNY 283
              V ++        +  +V  V  G FD+    +      G+S   ++  L    I N 
Sbjct: 253 STQVEELAGVVPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITND 312

Query: 284 EMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV 324
               + K +          R+ +G   ++QL  LL K+S +
Sbjct: 313 NFDTNFKNQISWLLFTTDSRLNNGTNEHIQLLNLLVKISQL 353

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus} Length = 226

 Score =  364 bits (937), Expect = e-128
 Identities = 102/222 (45%), Positives = 149/222 (67%), Gaps = 1/222 (0%)

Query: 12  DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL 71
              WVEKYRP  + ++VG  + + RL       N+P+L+ +GPPGTGKT + +ALA +L 
Sbjct: 4   FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF 63

Query: 72  GPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQAL 131
           G N+R+  +E+NASD+RGIDVVR+KIK FA+    +     K++ LDEAD++TA AQ AL
Sbjct: 64  GENWRDNFIEMNASDERGIDVVRHKIKEFARTA-PIGGAPFKIIFLDEADALTADAQAAL 122

Query: 132 RRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV 191
           RRTME+YS S RF L+CN  S+IIEPIQSRCA+ RF  +  E +  RL+ + ++E V   
Sbjct: 123 RRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKIT 182

Query: 192 PEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCD 233
            +GLEA+I+ + GD R+A+N LQ   +    V+ + ++++  
Sbjct: 183 EDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA 224

>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 Length = 354

 Score =  358 bits (920), Expect = e-124
 Identities = 83/353 (23%), Positives = 150/353 (42%), Gaps = 41/353 (11%)

Query: 14  PWVEKYRPTKVCDIVGNLDAVARL-GIIARDGNMPNLILAGPPGTGKTTSILALAHELLG 72
            WV+KYRP  +  +  N +    L  +  +  ++P+L+L GP GTGK T  +AL   + G
Sbjct: 3   LWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFG 62

Query: 73  PNYREA------------------------VMELNASDDRGID--VVRNKIKMFAQKKV- 105
           P                              +E+  SD    D  V++  +K  AQ +  
Sbjct: 63  PGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV 122

Query: 106 ------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQ 159
                      ++K V+++EA+S+T  AQ ALRRTME YS + R  + C+  S II PI+
Sbjct: 123 DFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIK 182

Query: 160 SRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVP-EGLEAIIFTADGDMRQALNNLQATYS 218
           S+C ++R    SD EI + L  VV  E++     + L+ I   ++G++R +L  L++   
Sbjct: 183 SQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMAL 242

Query: 219 GFRFVNQENVFKVCDQPHPLHVKNMVRNVLE----GKFDDACSGLKQLYDLGYSPTDIIT 274
                  ++   +      + +  + R +++        +  + L  L         I+ 
Sbjct: 243 NNELAL-KSSSPIIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIPANIILK 301

Query: 275 TLFR-IIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE 326
            L   ++    +    K   ++ +     R+  G  +   L G +AK+    +
Sbjct: 302 ELTFSLLDVETLNTTNKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCLD 354

>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* Length = 324

 Score =  352 bits (906), Expect = e-122
 Identities = 75/331 (22%), Positives = 139/331 (41%), Gaps = 25/331 (7%)

Query: 2   ASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGP-PGTGKT 60
             S  + +  +    +KYRP+ + + +           I   G +P++IL  P PGTGKT
Sbjct: 3   GGSMITVNEKEHILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKT 62

Query: 61  TSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEA 120
           T   AL H++        +M +N SD + ID VR  +  FA        G+ KV+V+DE 
Sbjct: 63  TVAKALCHDVNAD-----MMFVNGSDCK-IDFVRGPLTNFASAAS--FDGRQKVIVIDEF 114

Query: 121 D-SMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDE------ 173
           D S  A +Q+ LR  ME YS++    +  N    II+P+QSRC ++ F + +DE      
Sbjct: 115 DRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMM 174

Query: 174 -EILSRLMVVVQEEKVPYV-PEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKV 231
            +++ RL  + + E +     + + A++     D R+ +  L + YS    ++   +  V
Sbjct: 175 KQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDS-YSSKGVLDAGILSLV 233

Query: 232 CDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKL 291
            +      + +++ ++                      +  +  L   I +  +     +
Sbjct: 234 TNDRGA--IDDVLESLKNKDVKQL---RALAPKYAADYSWFVGKLAEEIYSR-VTPQSII 287

Query: 292 EFMKEAGFAHMRICDGVGSYLQLCGLLAKLS 322
              +  G  +        + L L  L  +L+
Sbjct: 288 RMYEIVGENNQYHGIAANTELHLAYLFIQLA 318

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Length = 516

 Score =  326 bits (837), Expect = e-109
 Identities = 81/369 (21%), Positives = 136/369 (36%), Gaps = 56/369 (15%)

Query: 2   ASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARD-----------------G 44
                   A D  W  KY PT +  + GN  +V +L     +                 G
Sbjct: 16  VLFQGPHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSG 75

Query: 45  NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQ-- 102
                +L GPPG GKTT+   +A EL        ++E NASD R   ++   +K      
Sbjct: 76  VFRAAMLYGPPGIGKTTAAHLVAQEL-----GYDILEQNASDVRSKTLLNAGVKNALDNM 130

Query: 103 ---------KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTR-FALACN-VS 151
                    ++     GKH V+++DE D M+ G +  + +  +    ++    L CN  +
Sbjct: 131 SVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERN 190

Query: 152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALN 211
              + P    C  ++F R     I SRLM +   EK    P  ++ +I T  GD+RQ +N
Sbjct: 191 LPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVIN 250

Query: 212 NLQATYSGFRFVNQENVFKVCDQPHP---LHVKNMVRNVLEGK----FDDACSGLKQLYD 264
            L    +  + +N EN+ ++         L   ++   +L+G+           L     
Sbjct: 251 LLSTISTTTKTINHENINEISKAWEKNIALKPFDIAHKMLDGQIYSDIGSRNFTLNDKIA 310

Query: 265 LGYSPTDIITTL-----FRIIKNYEMAEHLKLEFMKEAG---------FAHMRICDGVGS 310
           L +   D    +          +        LE + EA             +R  + + S
Sbjct: 311 LYFDDFDFTPLMIQENYLSTRPSVLKPGQSHLEAVAEAANCISLGDIVEKKIRSSEQLWS 370

Query: 311 YLQLCGLLA 319
            L L  +L+
Sbjct: 371 LLPLHAVLS 379

>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* Length = 334

 Score = 92.1 bits (229), Expect = 2e-21
 Identities = 43/214 (20%), Positives = 74/214 (34%), Gaps = 34/214 (15%)

Query: 49  LILAGPPGTGKTTSILALAHELL--GPNYREA-----------------VMELNASDDR- 88
           L++   PG G    I AL+  LL   P   ++                    L     + 
Sbjct: 27  LLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKN 86

Query: 89  --GIDVVRNKIKMFAQKKVTLPP--GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRF 144
             G+D VR        +K+      G  KVV + +A  +T  A  AL +T+E     T F
Sbjct: 87  TLGVDAVRE-----VTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWF 141

Query: 145 ALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG 204
            LA     +++  ++SRC +   +   ++  ++ L       +V    + L A +  + G
Sbjct: 142 FLATREPERLLATLRSRCRLHYLAPPPEQYAVTWL-----SREVTMSQDALLAALRLSAG 196

Query: 205 DMRQALNNLQATYSGFRFVNQENVFKVCDQPHPL 238
               AL   Q      R    + +          
Sbjct: 197 SPGAALALFQGDNWQARETLCQALAYSVPSGDWY 230

>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* Length = 250

 Score = 78.8 bits (195), Expect = 3e-17
 Identities = 58/243 (23%), Positives = 100/243 (41%), Gaps = 40/243 (16%)

Query: 18  KYRPTKVCDIVGNLDAVAR-LGIIARDGNMPN-LILAGPPGTGKTTS--ILALAHELLGP 73
           K+RP    D+VG  + V   L      G + +  + +G  G GKT+   +LA        
Sbjct: 16  KWRPQTFADVVGQ-EHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKG-----L 69

Query: 74  NYREA----------------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP-- 109
           N                          ++E++A+    ++  R+ +       V   P  
Sbjct: 70  NCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLD-----NVQYAPAR 124

Query: 110 GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSR 169
           G+ KV ++DE   ++  +  AL +T+E      +F LA     K+   I SRC       
Sbjct: 125 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKA 184

Query: 170 LSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QATYSGFRFVNQENV 228
           L  E+I  +L  ++ EE + + P  L+ +   A+G +R AL+   QA  SG   V+ + V
Sbjct: 185 LDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAV 244

Query: 229 FKV 231
             +
Sbjct: 245 SAM 247

>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* Length = 373

 Score = 77.3 bits (191), Expect = 5e-16
 Identities = 62/300 (20%), Positives = 116/300 (38%), Gaps = 52/300 (17%)

Query: 18  KYRPTKVCDIVGNLDAVAR-LGIIARDGNMPN-LILAGPPGTGKTTS--ILALAHELLGP 73
           K+RP    D+VG  + V   L      G + +  + +G  G GKT+   +LA     L  
Sbjct: 9   KWRPQTFADVVGQ-EHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKG---L-- 62

Query: 74  NYREA----------------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPP-- 109
           N                          ++E++A+    ++  R+ +       V   P  
Sbjct: 63  NCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLD-----NVQYAPAR 117

Query: 110 GKHKVVVLDEADSMTAGAQQALRRTME------IYSNSTRFALACNVSSKIIEPIQSRCA 163
           G+ KV ++DE   ++  +  AL +T+E             F LA     K+   I SRC 
Sbjct: 118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVK------FLLATTDPQKLPVTILSRCL 171

Query: 164 IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QATYSGFRF 222
                 L  E+I  +L  ++ EE + + P  L+ +   A+G +R AL+   QA  SG   
Sbjct: 172 QFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQ 231

Query: 223 VNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN 282
           V+ + V  +          ++V  ++E   +   + + +    G     ++  +  ++  
Sbjct: 232 VSTQAVSAMLGTLDDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHR 291

>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 Length = 305

 Score = 64.0 bits (156), Expect = 8e-12
 Identities = 43/276 (15%), Positives = 82/276 (29%), Gaps = 37/276 (13%)

Query: 34  VARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREA-VMELN-ASDDRGID 91
           + R  II +   +  LI  G   +      L L   +     + + V+E++   ++ GID
Sbjct: 9   LKR--IIEKSEGISILI-NGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGID 65

Query: 92  VVRNKIKMFAQKKVTLPP--GKHKVVVLDEADSMTAGAQQALRRTME------IYSNSTR 143
            +R          +   P     K V++ + + MT  A  A  + +E      +      
Sbjct: 66  DIRTIKD-----FLNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAV------ 114

Query: 144 FALACNVSSKIIEPIQSRC------AIVRFSRLSDEEILSRL-MVVVQEEKVPYVPEGLE 196
             L       ++  I+SR           F  L  E+I      + + E       E  +
Sbjct: 115 IVLNTRRWHYLLPTIKSRVFRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALEAYK 174

Query: 197 AIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDAC 256
                  G M                + +     +        +      V   +F    
Sbjct: 175 LGAEKLSGLMESLKVLETEK-----LLKKVLSKGLEGYLACRELLERFSKVESKEFFALF 229

Query: 257 SGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLE 292
             +      G     +I  L RII +    E ++ +
Sbjct: 230 DQVTNTIT-GKDAFLLIQRLTRIILHENTWESVEDQ 264

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 58.3 bits (142), Expect = 1e-09
 Identities = 54/240 (22%), Positives = 88/240 (36%), Gaps = 59/240 (24%)

Query: 4   SSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIAR---DGNMPNLILAGPPGTGKT 60
           S   S     P   + RP  +   +G    +A    + R    G++ ++IL GPPGTGKT
Sbjct: 5   SLDFSDNTFQPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKT 64

Query: 61  TSILA--LAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLD 118
           T  LA  +A           V  ++A    G+  +R   +   + +     G+  ++ +D
Sbjct: 65  T--LAEVIARYA-----NADVERISAVTS-GVKEIR---EAIERARQNRNAGRRTILFVD 113

Query: 119 EA--------DSMTA----------GAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQS 160
           E         D+             GA      T E            N S ++   + S
Sbjct: 114 EVHRFNKSQQDAFLPHIEDGTITFIGA------TTE------------NPSFELNSALLS 155

Query: 161 RCAIVRFSRLSDEEILSRLMVVVQEE-------KVPYVPEGLEAIIFTADGDMRQALNNL 213
           R  +     LS E+I   L   ++++        +    E   AI    +GD R+ALN L
Sbjct: 156 RARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTL 215

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D* Length = 368

 Score = 57.6 bits (139), Expect = 1e-09
 Identities = 44/277 (15%), Positives = 87/277 (31%), Gaps = 77/277 (27%)

Query: 27  IVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL---------------- 70
             G +  + R G IA       +++AG PGTGKT   + +A  L                
Sbjct: 55  AAGVVLEMIREGKIAGRA----VLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFS 110

Query: 71  LGPNYREAVMELNASDDRG--------------IDVVRNKIKMFAQ-------------- 102
           L  +  EA+ +                      IDV+ ++ + F                
Sbjct: 111 LEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVR 170

Query: 103 KKVTLPPGKHK----------VVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS 152
           +++     + +          V+ +DE   +   +   L R +E    +    +A N   
Sbjct: 171 EQINAKVAEWREEGKAEIIPGVLFIDEVHMLDIESFSFLNRALE-SDMAPVLIMATNRGI 229

Query: 153 ------------KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIF 200
                        I   +  R  IV  +  S+++    L +  +EE V    +    +  
Sbjct: 230 TRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTR 289

Query: 201 TA-DGDMRQALN-----NLQATYSGFRFVNQENVFKV 231
              +  +R A+      +L         V  +++ +V
Sbjct: 290 IGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRV 326

>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 Length = 389

 Score = 55.2 bits (132), Expect = 1e-08
 Identities = 40/251 (15%), Positives = 82/251 (32%), Gaps = 42/251 (16%)

Query: 38  GIIARDGNMP-NLILAGPPGTGKTTSILALAHEL--------------LGPNYREAVMEL 82
             +   G+      L G PGTGKT ++  L                  +  N+   + E+
Sbjct: 35  NWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEI 94

Query: 83  NASDDRGIDVVRNKIKMFAQK--KVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSN 140
             S +            F     +       +  +VLD+A ++         R  +    
Sbjct: 95  ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADK 154

Query: 141 STRFALAC-------NVSSKIIEPIQSRCA--IVRFSRLSDEE----ILSRLMV-----V 182
              F +A         V + +    +      ++RFS  + ++    +L R         
Sbjct: 155 LGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGS 214

Query: 183 VQEEKVPYVPE--GLEAIIFTADGDMRQALNNLQ-----ATYSGFRFVNQENVFKVCDQP 235
             E+ +  + +  G +  + T  GD R A++ L      A  +G + +  E+V K   + 
Sbjct: 215 YSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEV 274

Query: 236 HPLHVKNMVRN 246
                + ++  
Sbjct: 275 LFGISEEVLIG 285

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 54.9 bits (131), Expect = 2e-08
 Identities = 59/366 (16%), Positives = 117/366 (31%), Gaps = 88/366 (24%)

Query: 12  DIPWVEKY---RPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAH 68
           D     KY   R      +     A+  L    R     N+++ G  G+GKT     +A 
Sbjct: 122 DNQVFAKYNVSRLQPYLKLR---QALLEL----RPA--KNVLIDGVLGSGKTW----VAL 168

Query: 69  ELLGPNYREAVME-----LN-ASDDRGIDVVRNKIKMFAQ-KKVTLPPGKHKVVVLDEAD 121
           ++      +  M+     LN  + +    V+    K+  Q          H   +     
Sbjct: 169 DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228

Query: 122 SMTAGAQQALRRTM--EIYSNSTRFALAC--NV-SSKIIEPIQSRCAIV---RFSRLSDE 173
           S     Q  LRR +  + Y N     L    NV ++K        C I+   RF +++D 
Sbjct: 229 S----IQAELRRLLKSKPYENC----LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDF 280

Query: 174 EILSRLMVVVQEEKVP--YVPEGLEAIIF-----TADGDM-RQA--------------LN 211
              +    +  +         E     +          D+ R+               + 
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKS--LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR 338

Query: 212 NLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLY-DLGYSPT 270
           +  AT+  ++ VN + +  +        +++ + NVLE    +     ++++  L   P 
Sbjct: 339 DGLATWDNWKHVNCDKLTTI--------IESSL-NVLE--PAE----YRKMFDRLSVFPP 383

Query: 271 DI-ITT-LFRII---KNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR 325
              I T L  +I           +  +  K +    +       S + +  +  +L +  
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS----LVEKQPKESTISIPSIYLELKVKL 439

Query: 326 ETAKAV 331
           E   A+
Sbjct: 440 ENEYAL 445

>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} Length = 384

 Score = 52.8 bits (126), Expect = 5e-08
 Identities = 40/243 (16%), Positives = 78/243 (32%), Gaps = 36/243 (14%)

Query: 40  IARDGNMPNLILAGPPGTGKTTSILALAHELLG---------------------PNYREA 78
             ++    + +  G  GTGKT     + +E+                           +A
Sbjct: 39  FVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQA 98

Query: 79  VMELNASDDRGIDVVR--NKIKMFAQKKVTLPPGKHKVVVLDEADSM--TAGAQQALRRT 134
           V+   A    G  V +    +  +  K          ++ LDE D++    G    L + 
Sbjct: 99  VLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQL 158

Query: 135 MEIYSNSTRFALACNVS--SKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYV 191
           +   +N +   ++ +++    +   + S     V F     E++   L    +   +   
Sbjct: 159 LRSDANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGT 218

Query: 192 --PEGLEAI---IFTADGDMRQALNNLQATY---SGFRFVNQENVFKVCDQPHPLHVKNM 243
              E L  I        GD R+A+N L       SG   + +E+V K         +   
Sbjct: 219 YDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGIIRKEHVDKAIVDYEQERLIEA 278

Query: 244 VRN 246
           V+ 
Sbjct: 279 VKA 281

>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* Length = 343

 Score = 47.5 bits (113), Expect = 2e-06
 Identities = 22/182 (12%), Positives = 58/182 (31%), Gaps = 9/182 (4%)

Query: 110 GKHKVVVLDEADS-MTAGAQQALRRTMEIYSNSTRFALACN------VSSKIIEPIQSRC 162
              + ++L   ++   A   + L     +  +     +  N       ++     + +R 
Sbjct: 75  ASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRS 134

Query: 163 AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ--ATYSGF 220
             V        ++   +    ++  +       + + +  +G++      L+  +     
Sbjct: 135 VQVTCQTPEQAQLPRWVAARAKQLNLELDDAANQVLCYCYEGNLLALAQALERLSLLWPD 194

Query: 221 RFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRII 280
             +    V +  +        + V  +L GK   A   L+QL   G  P  ++ TL R +
Sbjct: 195 GKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHILQQLRLEGSEPVILLRTLQREL 254

Query: 281 KN 282
             
Sbjct: 255 LL 256

>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} Length = 386

 Score = 46.6 bits (110), Expect = 5e-06
 Identities = 40/249 (16%), Positives = 80/249 (32%), Gaps = 44/249 (17%)

Query: 40  IARDGNMPNLILAGPPGTGKTTSILALAHEL---LGPNYREAVMELNASDDRGIDVVRNK 96
           + R+    N+ + G  GTGKT  +  +  +L       ++   + +N         V   
Sbjct: 39  LYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFK--HVYINTRQIDTPYRVLAD 96

Query: 97  I-----------------KMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA----LRRTM 135
           +                       K     G   V+VLDE D+            L R  
Sbjct: 97  LLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRIN 156

Query: 136 EIYSNSTRFALAC-----NVSSKIIEPIQSRCAIVR--FSRLSDEEIL----SRLMVVVQ 184
              + S + +             +   ++S  +     F   + EE+      R  +  +
Sbjct: 157 SEVNKS-KISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFK 215

Query: 185 EEKV-PYVPEGLEAIIFTADGDMRQALNNLQ-----ATYSGFRFVNQENVFKVCDQPHPL 238
              +   V +   A+     GD R+AL+ L+     A       V +E V+   ++    
Sbjct: 216 PGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDTKVKEEYVYMAKEEIERD 275

Query: 239 HVKNMVRNV 247
            V++++  +
Sbjct: 276 RVRDIILTL 284

>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* Length = 456

 Score = 44.6 bits (105), Expect = 2e-05
 Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 5/56 (8%)

Query: 20 RPTKVCDIVGNLDAVARLGII---ARDGNMPN--LILAGPPGTGKTTSILALAHEL 70
                 +VG  +A    G+I    +   M    ++LAGPPGTGKT   LA+A EL
Sbjct: 32 AKQAASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL 87

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus} Length = 446

 Score = 43.3 bits (101), Expect = 7e-05
 Identities = 25/121 (20%), Positives = 44/121 (36%), Gaps = 12/121 (9%)

Query: 22  TKVCDIVGNLDAVARL--GIIARDGNMPNLILAGPPGTGKTTSILALAHE----LLGPNY 75
           + V   +  L  + RL         +   +++ G PG GKT  IL+  +     +L P  
Sbjct: 135 SVVYSDMAKLRTLRRLLKDGEPHVSSAKVVLVDGVPGCGKTKEILSRVNFEEDLILVPG- 193

Query: 76  REAVMELN-ASDDRGIDVVRN----KIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQA 130
           R+A   +   ++  GI V        +  F          + K + +DE   +  G    
Sbjct: 194 RQAAEMIRRRANASGIIVATKDNVRTVDSFLMNYGKGARCQFKRLFIDEGLMLHTGCVNF 253

Query: 131 L 131
           L
Sbjct: 254 L 254

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 40.5 bits (94), Expect = 4e-04
 Identities = 36/175 (20%), Positives = 60/175 (34%), Gaps = 15/175 (8%)

Query: 48  NLILAGPPGTGKTTSILALAHEL--LGPNYREAVMELNASDDRGIDV------VRNKIKM 99
           ++   G PGTGKTT  L +A  L  LG   +  ++ +   D  G  +       +  +K 
Sbjct: 69  HMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKR 128

Query: 100 FAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS-----KI 154
            A   V      + +   D        A + L + ME   +     LA          + 
Sbjct: 129 -AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQS 187

Query: 155 IEPIQSR-CAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQ 208
               +SR    + F   SDEE+      ++ ++     PE   A+         Q
Sbjct: 188 NPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQ 242

>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 = 40.5 bits (95), Expect = 4e-04
 Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 5/90 (5%)

Query: 25  CDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA 84
             IVG  D    L + A D  +  +++ G  GTGK+T++ ALA  LL          +++
Sbjct: 24  SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALA-ALLPEIEAVEGCPVSS 82

Query: 85  SDDRGIDVVRNKIKMFAQKK----VTLPPG 110
            +   I      +     +K    V LP G
Sbjct: 83  PNVEMIPDWATVLSTNVIRKPTPVVDLPLG 112

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	331
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	100.0
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	100.0
2chq_A	319	Replication factor C small subunit; DNA-binding pr	100.0
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	100.0
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	100.0
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	100.0
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	100.0
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	100.0
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	100.0
3pvs_A	447	Replication-associated recombination protein A; ma	100.0
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	100.0
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	100.0
2chg_A	226	Replication factor C small subunit; DNA-binding pr	100.0
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.97
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.96
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.95
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.94
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.93
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.93
3bos_A	242	Putative DNA replication factor; P-loop containing	99.91
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.91
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.9
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.9
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.89
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.88
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.88
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.88
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.87
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.87
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.86
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.86
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.85
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.85
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.85
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.85
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.85
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.85
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	99.84
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.84
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.84
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.83
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.82
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.82
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.82
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.81
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	99.81
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.81
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.81
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.81
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.8
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.8
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.79
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.79
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.77
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.77
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.77
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.77
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.77
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.76
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.76
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.76
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.75
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.75
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.74
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.72
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.71
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.7
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.7
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.7
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.69
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.67
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.64
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.64
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.61
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.6
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.59
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.59
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.56
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	99.53
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.53
3co5_A	143	Putative two-component system transcriptional RES	99.51
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.5
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.49
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.49
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.46
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.42
2fna_A	357	Conserved hypothetical protein; structural genomic	99.4
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.36
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.35
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	99.24
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	99.18
3f8t_A	506	Predicted ATPase involved in replication control,	99.14
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.12
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.08
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.07
1tue_A	212	Replication protein E1; helicase, replication, E1E	99.05
2qgz_A	308	Helicase loader, putative primosome component; str	98.95
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.9
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	98.78
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.75
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.71
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	98.65
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	98.6
1jql_B	140	DNA polymerase III, delta subunit; processivity cl	98.48
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.39
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.24
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	98.23
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	98.03
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.93
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.9
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.82
3ctd_A	213	Putative ATPase, AAA family; structural genomics,	97.72
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.68
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.67
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.58
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.53
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.52
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.48
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	97.46
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.45
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.43
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.42
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.4
3b6e_A	216	Interferon-induced helicase C domain-containing P;	97.38
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.36
3h1t_A	590	Type I site-specific restriction-modification syst	97.35
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.35
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.33
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.32
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	97.32
2r9g_A	204	AAA ATPase, central region; structural genomics, P	97.32
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.31
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.29
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	97.29
3bge_A	201	Predicted ATPase; structural genomics, predicted A	97.24
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	97.23
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.17
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	97.16
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	97.15
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.15
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.15
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.15
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.14
3io5_A	333	Recombination and repair protein; storage dimer, i	97.13
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.13
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.11
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.11
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.1
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.1
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.09
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	97.04
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	97.03
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.03
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.99
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.98
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.97
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	96.97
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.94
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.92
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.91
1via_A	175	Shikimate kinase; structural genomics, transferase	96.91
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.91
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.9
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	96.89
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.84
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.83
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	96.79
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	96.78
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.77
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.77
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.75
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	96.74
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.73
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.71
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.7
3bor_A	237	Human initiation factor 4A-II; translation initiat	96.69
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	96.69
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.67
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.66
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.65
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.63
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	96.62
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	96.62
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	96.61
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.61
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.6
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.58
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.57
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.57
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.56
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.56
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.55
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.54
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.52
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.52
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	96.51
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.51
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	96.48
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.46
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.45
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.45
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	96.43
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.39
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.39
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.39
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	96.39
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.38
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.38
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.37
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	96.36
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.35
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.34
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.34
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	96.33
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	96.31
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	96.31
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.3
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.28
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	96.28
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.28
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	96.27
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.26
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.26
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.22
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	96.22
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	96.21
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	96.19
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.19
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.18
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	96.18
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.16
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.16
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.15
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.15
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.15
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.15
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	96.14
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	96.12
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.12
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	96.1
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.07
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.06
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.05
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	96.02
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.02
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	96.02
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.01
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.01
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.01
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.99
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.98
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.98
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	95.97
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	95.97
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.96
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.94
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.93
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.92
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.92
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.91
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.91
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.91
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.91
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.89
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.88
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.86
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	95.85
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.84
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.84
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.84
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.83
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.83
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.83
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	95.83
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	95.81
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.81
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.8
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.79
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.79
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.79
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.78
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.78
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.78
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.78
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.76
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.75
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.74
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.74
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.74
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.73
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.69
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.69
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	95.68
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.67
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.67
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.67
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.67
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.65
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.64
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.64
2xxa_A	433	Signal recognition particle protein; protein trans	95.63
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.62
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.62
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.61
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.61
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	95.58
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.56
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.56
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.55
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.51
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.5
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.49
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.47
3llu_A	196	RAS-related GTP-binding protein C; structural geno	95.47
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.46
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.45
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.45
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.44
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.43
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	95.42
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.41
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.41
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.4
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	95.38
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.37
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.34
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.34
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.33
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	95.31
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.3
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.29
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.28
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.28
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.28
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.24
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.18
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.18
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.18
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	95.16
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.16
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.15
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.15
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.12
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.12
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.11
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.1
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.1
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.08
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.08
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	95.06
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.05
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.05
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.05
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	95.05
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	95.04
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.04
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	95.03
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.03
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.03
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	95.02
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.01
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.0
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.0
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.98
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.96
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.93
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.93
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.91
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.9
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.89
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	94.89
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.86
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.85
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.83
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.82
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.81
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.81
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.79
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.79
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.78
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	94.78
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	94.78
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	94.76
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	94.75
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.75
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.74
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	94.73
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.72
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	94.72
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.71
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.7
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.7
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.69
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.68
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.68
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.68
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.67
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.61
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	94.59
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.59
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.58
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	94.57
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.55
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.54
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.53
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	94.53
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.51
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	94.49
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.48
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.48
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	94.47
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	94.47
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	94.46
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	94.45
2zpa_A	671	Uncharacterized protein YPFI; RNA modification enz	94.42
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	94.41
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	94.39
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	94.36
3dmq_A	968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	94.34
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.33
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	94.3
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	94.29
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.28
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.25
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.24
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.23
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.22
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	94.19
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.16
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	94.15
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.15
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.14
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.09
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	94.09
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.06
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	94.05
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.05
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.04
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	94.04
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.97
2w00_A	1038	HSDR, R.ECOR124I; ATP-binding, DNA-binding, restri	93.97
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	93.94
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	93.94
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.93
3o8b_A	666	HCV NS3 protease/helicase; ntpase, RNA, translocat	93.88
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.88
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	93.88
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.87
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.76
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.75
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.74
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	93.72
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	93.72
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.71
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.68
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	93.64
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	93.64
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.61
1yks_A	440	Genome polyprotein [contains: flavivirin protease	93.59
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.58
2wv9_A	673	Flavivirin protease NS2B regulatory subunit, FLAV	93.57
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.57
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.53
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	93.52
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	93.49
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	93.46
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.46
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	93.46
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	93.45
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	93.41
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.4
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.39
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.39
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	93.38
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	93.36
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.36
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	93.32
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.31
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	93.28
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	93.27
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.26
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.26
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.19
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	92.3
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.17
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.16
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	93.16
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.13
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.12
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	93.12
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.12
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.11
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.09
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.09
3czq_A	304	Putative polyphosphate kinase 2; structural genomi	93.07
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.06
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.03
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	93.01
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	92.97

>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=100.00  E-value=4.9e-49  Score=352.69  Aligned_cols=326  Identities=35%  Similarity=0.625  Sum_probs=289.9

Q ss_pred             CCCCCCCCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceE
Q 020071            1 MASSSSSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVM   80 (331)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~   80 (331)
                      |-+|+++......||.++|||+.|++++|+++++..|...+..|..||++|+||+|+|||++++.+++.+.|..+...+.
T Consensus         1 ~~~~~~~~~~~~~~~~~k~rp~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~   80 (340)
T 1sxj_C            1 MSTSTEKRSKENLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVL   80 (340)
T ss_dssp             -----------CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEE
T ss_pred             CCCCCCCccccCCchHHHhCCCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEE
Confidence            55677777777899999999999999999999999999999999999999999999999999999999998876666788


Q ss_pred             EeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhc
Q 020071           81 ELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQS  160 (331)
Q Consensus        81 ~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~s  160 (331)
                      ++++++..+.+.+++.+..+......+ .++++++||||+|.++.+++++|++++|+|+.++++|+++|...++.++++|
T Consensus        81 ~~~~~~~~~~~~ir~~i~~~~~~~~~~-~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~s  159 (340)
T 1sxj_C           81 ELNASDDRGIDVVRNQIKDFASTRQIF-SKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLS  159 (340)
T ss_dssp             EECTTSCCSHHHHHTHHHHHHHBCCSS-SCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHT
T ss_pred             EEcCcccccHHHHHHHHHHHHhhcccC-CCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHh
Confidence            899888778888888877766432111 3568999999999999999999999999999999999999999999999999


Q ss_pred             ccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCC-----ccchhhhhhhcCCC
Q 020071          161 RCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFR-----FVNQENVFKVCDQP  235 (331)
Q Consensus       161 r~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~-----~i~~~~v~~~~~~~  235 (331)
                      ||..+.|.|++.+++.+++..+++.+++.+++++++.+++.++|++|.+++.++.++....     .|+.+++.++++..
T Consensus       160 R~~~~~~~~l~~~~~~~~l~~~~~~~~~~i~~~~~~~i~~~s~G~~r~~~~~l~~~~~~~~~~~~~~it~~~v~~~~~~~  239 (340)
T 1sxj_C          160 QCTRFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAP  239 (340)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTTCC
T ss_pred             hceeEeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCcccccccHHHHHHHhCCC
Confidence            9999999999999999999999998999999999999999999999999999987753322     69999999999999


Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHHhcccC-hHhHHHHHHHHHHHHHHHhcCCCchHH
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQLYD-LGYSPTDIITTLFRIIKNYEMA-EHLKLEFMKEAGFAHMRICDGVGSYLQ  313 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l~~-~g~~~~~i~~~l~~~~~~~~~~-~~~~~~~~~~l~~~~~~l~~~~~~~l~  313 (331)
                      ....++++++++.+++..+++.++.+++. .|+++.+|+..+.+.++.+.++ ...+.+++..+.+++++++.|+|+.++
T Consensus       240 ~~~~i~~l~~~i~~~~~~~al~~l~~l~~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~l~  319 (340)
T 1sxj_C          240 RPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGGNDQIQ  319 (340)
T ss_dssp             CHHHHHHHHHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHHHHTTCCCHHHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHhCCChHHH
Confidence            99999999999999999999999999998 9999999999999999887777 889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q 020071          314 LCGLLAKLSIVRET  327 (331)
Q Consensus       314 l~~l~~~l~~~~~~  327 (331)
                      |+.++++++++.+.
T Consensus       320 le~l~~~l~~~~~~  333 (340)
T 1sxj_C          320 GSAVIGAIKASFEN  333 (340)
T ss_dssp             HHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999999987764

>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=100.00  E-value=2.7e-46  Score=333.18  Aligned_cols=318  Identities=44%  Similarity=0.725  Sum_probs=288.0

Q ss_pred             CCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071            7 SSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus         7 ~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      .....+.||.++|+|.+|++++|+++.+..+..++..+..+|++|+||+|+|||++|+.+++.+.+..+...++.+++.+
T Consensus         7 ~~~~~~~~~~~k~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~   86 (327)
T 1iqp_A            7 EVKVLEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD   86 (327)
T ss_dssp             HHHHTTSCHHHHTCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTC
T ss_pred             hhcccCCchhhccCCCCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccc
Confidence            34556789999999999999999999999999999999998999999999999999999999987665556688888876


Q ss_pred             CCChHhHHHHHHHHHhc-ccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhccccee
Q 020071           87 DRGIDVVRNKIKMFAQK-KVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIV  165 (331)
Q Consensus        87 ~~~~~~i~~~i~~~~~~-~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i  165 (331)
                      ..+.+.+++.+..+... ++  ..++++++||||+|.++.+.+++|++++++++.++++|++++...++.+++.+||..+
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~--~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~  164 (327)
T 1iqp_A           87 ERGINVIREKVKEFARTKPI--GGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIF  164 (327)
T ss_dssp             HHHHHTTHHHHHHHHHSCCG--GGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEE
T ss_pred             cCchHHHHHHHHHHHhhCCc--CCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEE
Confidence            65556666666555432 22  1267899999999999999999999999999999999999999999999999999999


Q ss_pred             eecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHH
Q 020071          166 RFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVR  245 (331)
Q Consensus       166 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~  245 (331)
                      .|+|++.+++..++..++..+++.+++++++.+++.++||+|.+++.++.+......|+.+++.++.+...+..++++++
T Consensus       165 ~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~  244 (327)
T 1iqp_A          165 RFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMML  244 (327)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSEECHHHHHHHTTCCCHHHHHHHHH
T ss_pred             EecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHCCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999998876667899999999999999999999999


Q ss_pred             HHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHH
Q 020071          246 NVLEGKFDDACSGLKQLY-DLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIV  324 (331)
Q Consensus       246 ~~~~~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~  324 (331)
                      ++..++...++.++++++ ..|+++.+++..+.+.++.+.++...+.+++..+.++++++++|+|+.++|+.++++++++
T Consensus       245 ~~~~~~~~~~~~~~~~ll~~~g~~~~~i~~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~lk~~~~~~~~le~l~~~l~~~  324 (327)
T 1iqp_A          245 LALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANEIIQLEALLAQFTLI  324 (327)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHGGGSSSCHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Confidence            999999999999999998 8999999999999998888778899999999999999999999999999999999999987


Q ss_pred             Hh
Q 020071          325 RE  326 (331)
Q Consensus       325 ~~  326 (331)
                      .+
T Consensus       325 ~~  326 (327)
T 1iqp_A          325 GK  326 (327)
T ss_dssp             HC
T ss_pred             hc
Confidence            65

>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=100.00  E-value=3.5e-46  Score=331.31  Aligned_cols=312  Identities=41%  Similarity=0.699  Sum_probs=285.6

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID   91 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~   91 (331)
                      ..||.++|+|..|++++|+++.+..+.+++..+..+|++|+||+|+|||++|+.+++.+.+..+...++.+++++..+.+
T Consensus         4 ~~~~~~k~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~   83 (319)
T 2chq_A            4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGID   83 (319)
T ss_dssp             --CTTTTTSCSSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTT
T ss_pred             cccHHHhcCCCCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChH
Confidence            35899999999999999999999999999999998889999999999999999999999877666778899988776666


Q ss_pred             hHHHHHHHHHh-cccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCC
Q 020071           92 VVRNKIKMFAQ-KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRL  170 (331)
Q Consensus        92 ~i~~~i~~~~~-~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~  170 (331)
                      .+++.+..+.. .++  ..++++++||||+|.++.+.+++|++++++++.++++|++++...++.+++++||..+.|.|+
T Consensus        84 ~~~~~~~~~~~~~~~--~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~  161 (319)
T 2chq_A           84 VVRHKIKEFARTAPI--GGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPV  161 (319)
T ss_dssp             TSSHHHHHHHHSCCS--SSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCC
T ss_pred             HHHHHHHHHHhcCCC--CCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCC
Confidence            66666666552 222  135689999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHcC
Q 020071          171 SDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEG  250 (331)
Q Consensus       171 ~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~  250 (331)
                      +.+++..++..++.++++.+++++++.++..++||+|.+.+.++.++...+.|+.+++.++++......++++++++..+
T Consensus       162 ~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~~~~l~~~~~~~  241 (319)
T 2chq_A          162 PKEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTALKG  241 (319)
T ss_dssp             CHHHHHHHHHHHHHTTCCCBCHHHHHHHHHTTTTCHHHHHHHHHHHHHSSSCBCHHHHHHHTTCCCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHCCCCHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999887666789999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          251 KFDDACSGLKQLYD-LGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       251 ~~~~~~~~l~~l~~-~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      +..+++.++.+++. .|+++.+++..+.+.++.+.++...+.+++..+.+++++++.|+++.++++.++++++++.
T Consensus       242 ~~~~a~~~l~~l~~~~g~~~~~i~~~l~~~~~~l~~~~~~l~~~~~~l~~~~~~lk~~~~~~~~le~l~~~l~~~~  317 (319)
T 2chq_A          242 NFMEARELLDRLMVEYGMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGANERIQLDAYLAYLSTLA  317 (319)
T ss_dssp             CHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTSCSCTTHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhh
Confidence            99999999999997 9999999999999999887778888999999999999999999999999999999999764

>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=100.00  E-value=9.6e-45  Score=322.61  Aligned_cols=314  Identities=61%  Similarity=1.008  Sum_probs=284.0

Q ss_pred             CCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC
Q 020071           10 AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG   89 (331)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (331)
                      ....||.++|+|..|++++|++..++.+.+++..+..+|++|+||+|+|||++|+.+++.+.|+.+...++.+++.+..+
T Consensus         6 ~~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   85 (323)
T 1sxj_B            6 SLQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRG   85 (323)
T ss_dssp             -CCCCHHHHTCCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCS
T ss_pred             cccCcHHHhcCCCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccC
Confidence            34679999999999999999999999999999999988999999999999999999999987766566788899888777


Q ss_pred             hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecC
Q 020071           90 IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSR  169 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~  169 (331)
                      .+.+++.+..+......+..+++++|||||+|.++...+++|++++++++.++++|++++...++.+++++||..+.|+|
T Consensus        86 ~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~  165 (323)
T 1sxj_B           86 IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSK  165 (323)
T ss_dssp             HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             hHHHHHHHHHHHhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecC
Confidence            88888887777633222213458999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHHHHc
Q 020071          170 LSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRNVLE  249 (331)
Q Consensus       170 ~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~  249 (331)
                      ++.+++.+++..+++..++.+++++++.+++.++||+|.+++.++.+....+.|+.+++.++++......+++++++   
T Consensus       166 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~a~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~~~~~---  242 (323)
T 1sxj_B          166 LSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKMLLA---  242 (323)
T ss_dssp             CCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHHHSSBCHHHHHHHHTSCCHHHHHHHHSC---
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCcCHHHHHHHHCCCCHHHHHHHHhc---
Confidence            99999999999999999999999999999999999999999999988655567999999999999888899998887   


Q ss_pred             CCHHHHHHHHHH-HHHcCCCHHHHHHHHHHHHHhcc-cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh
Q 020071          250 GKFDDACSGLKQ-LYDLGYSPTDIITTLFRIIKNYE-MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       250 ~~~~~~~~~l~~-l~~~g~~~~~i~~~l~~~~~~~~-~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~  326 (331)
                      ++..+++.++.+ ++..|+++.+++..+.++++.+. ++...+.+++..+.+++++++.|+|+.++++.++++++++.+
T Consensus       243 ~~~~~~l~~l~~dl~~~g~~~~~i~~~l~~~~~~l~~~~~~~l~~~l~~l~~~~~~l~~~~~~~l~le~l~~~~~~~~~  321 (323)
T 1sxj_B          243 SNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQLASMLAKIHKLNN  321 (323)
T ss_dssp             SSHHHHHHHHHHTTTTTTCCHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHhhcc
Confidence            788899999998 88899999999999999998876 788899999999999999999999999999999999998765

>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=100.00  E-value=5.7e-44  Score=321.60  Aligned_cols=316  Identities=35%  Similarity=0.564  Sum_probs=277.5

Q ss_pred             CCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCC-CCCCceEEeecCCC
Q 020071            9 SAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP-NYREAVMELNASDD   87 (331)
Q Consensus         9 ~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~~   87 (331)
                      .....||.++|+|.+|++++|+++.++.+..++..+..+|++|+||+|+|||++++.+++.+.+. .....++.+++.+.
T Consensus        21 ~~~~~~~~~k~~p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~  100 (353)
T 1sxj_D           21 SLAQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDE  100 (353)
T ss_dssp             -----CHHHHTCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSC
T ss_pred             cccCccHHHhcCCCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccc
Confidence            34457999999999999999999999999999999988889999999999999999999997542 23456788888876


Q ss_pred             CChHhHHHHHHHHHhcccC---------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhh
Q 020071           88 RGIDVVRNKIKMFAQKKVT---------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPI  158 (331)
Q Consensus        88 ~~~~~i~~~i~~~~~~~~~---------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l  158 (331)
                      .+.+.+++.+..+......         .+.+++++++|||+|.++...+++|++++++++.++++|++++.+.++.+++
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l  180 (353)
T 1sxj_D          101 RGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPL  180 (353)
T ss_dssp             CCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHH
T ss_pred             cchHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchh
Confidence            6777777766665543211         1134678999999999999999999999999999999999999999999999


Q ss_pred             hcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh--CCC----ccchhhhhhhc
Q 020071          159 QSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS--GFR----FVNQENVFKVC  232 (331)
Q Consensus       159 ~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~--~~~----~i~~~~v~~~~  232 (331)
                      ++||..+.|.|++.+++..++..++..+++.+++++++.+++.++||+|.+++.++.++.  +..    .|+.+++.+++
T Consensus       181 ~sR~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~~r~~~~~l~~~~~~~~~~~~~~~It~~~v~~~~  260 (353)
T 1sxj_D          181 ASQCSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELA  260 (353)
T ss_dssp             HHHSEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHHHHH
T ss_pred             hccCceEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCccCccccHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999999999987642  221    79999999999


Q ss_pred             CCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-ccChHhHHHHHHHHHHHHHHHhcCCCch
Q 020071          233 DQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-EMAEHLKLEFMKEAGFAHMRICDGVGSY  311 (331)
Q Consensus       233 ~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l~~~~~~l~~~~~~~  311 (331)
                      .......++++++++..++...++.++.++...|+++..|+..+.+.+... +++...+.+++..+.++++++++|+|+.
T Consensus       261 ~~~~~~~~~~l~~~~~~~~~~~a~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~g~~~~  340 (353)
T 1sxj_D          261 GVVPHDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLFTTDSRLNNGTNEH  340 (353)
T ss_dssp             TCCCSHHHHHHHHHHHSCCHHHHHHHHHHHHHTSCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTTCCCHH
T ss_pred             CCCCHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhCCChH
Confidence            988889999999999999999999999999999999999999998887764 4788899999999999999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 020071          312 LQLCGLLAKLSIV  324 (331)
Q Consensus       312 l~l~~l~~~l~~~  324 (331)
                      ++|+.++++++++
T Consensus       341 l~l~~~~~~~~~~  353 (353)
T 1sxj_D          341 IQLLNLLVKISQL  353 (353)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999999853

>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=100.00  E-value=2.1e-42  Score=307.82  Aligned_cols=305  Identities=22%  Similarity=0.316  Sum_probs=258.1

Q ss_pred             CCCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071            6 SSSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus         6 ~~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      ...+....||.++|||.+|++++|+++.+..+.+++..+..|+ ++++||+|+|||++++++++.+     +.+++++++
T Consensus         7 ~~~~~~~~~~~~k~rP~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l-----~~~~~~i~~   81 (324)
T 3u61_B            7 ITVNEKEHILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV-----NADMMFVNG   81 (324)
T ss_dssp             CCCCTTCSSHHHHSCCCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT-----TEEEEEEET
T ss_pred             cccCcccchHHHhhCCCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh-----CCCEEEEcc
Confidence            3445667799999999999999999999999999999999888 5888889999999999999998     678999998


Q ss_pred             CCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-HHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccc
Q 020071           85 SDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-AGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCA  163 (331)
Q Consensus        85 ~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~  163 (331)
                      ++. +.+.+++.+..+.....  ..++++++||||+|.++ .+.++.|++++++++.++++|+++|...++.+++++||.
T Consensus        82 ~~~-~~~~i~~~~~~~~~~~~--~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~  158 (324)
T 3u61_B           82 SDC-KIDFVRGPLTNFASAAS--FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCR  158 (324)
T ss_dssp             TTC-CHHHHHTHHHHHHHBCC--CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSE
T ss_pred             ccc-CHHHHHHHHHHHHhhcc--cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCc
Confidence            775 57777777776655421  14578999999999999 999999999999999999999999999999999999999


Q ss_pred             eeeecCCCHHH-------HHHHHHHHHHhcCCCCCH-HHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCC
Q 020071          164 IVRFSRLSDEE-------ILSRLMVVVQEEKVPYVP-EGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQP  235 (331)
Q Consensus       164 ~i~~~~~~~~~-------~~~~l~~~~~~~~~~i~~-~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~  235 (331)
                      ++.|++|+.++       +..++...+..+++.+++ ++++.+++.++||+|.+++.++.++ ..+.|+.+++.++... 
T Consensus       159 ~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~R~a~~~L~~~~-~~~~i~~~~v~~~~~~-  236 (324)
T 3u61_B          159 VITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELDSYS-SKGVLDAGILSLVTND-  236 (324)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCTTHHHHHHHHHG-GGTCBCC----------
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCHHHHHHHHHHHh-ccCCCCHHHHHHHhCC-
Confidence            99999999877       455667777888999988 9999999999999999999999987 5567999999887665 


Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHH
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLC  315 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~  315 (331)
                       .+.++++++++..++..+++.++.+++.   ++..|+..+...... .++...+.++++.+++++++++.|.++.++|+
T Consensus       237 -~~~i~~~~~~~~~~~~~~a~~~~~~l~~---~~~~i~~~l~~~~~~-~~~~~~l~~i~~~l~~~d~~l~~g~~~~~~le  311 (324)
T 3u61_B          237 -RGAIDDVLESLKNKDVKQLRALAPKYAA---DYSWFVGKLAEEIYS-RVTPQSIIRMYEIVGENNQYHGIAANTELHLA  311 (324)
T ss_dssp             ----CHHHHHHHHTTCHHHHHHHHHHHSS---CHHHHHHHHHHHHHH-HSCHHHHHHHHHHHHHHHHHTTTCSCHHHHHH
T ss_pred             -HHHHHHHHHHHHcCCHHHHHHHHHHhcc---CHHHHHHHHHHHHHH-hCCHHHHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence             5678899999999999999999999877   888888887654433 26888899999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q 020071          316 GLLAKLSIVR  325 (331)
Q Consensus       316 ~l~~~l~~~~  325 (331)
                      .|+++++...
T Consensus       312 ~~~~~~~~~~  321 (324)
T 3u61_B          312 YLFIQLACEM  321 (324)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhc
Confidence            9999998643

>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=100.00  E-value=6.8e-42  Score=308.23  Aligned_cols=311  Identities=27%  Similarity=0.404  Sum_probs=254.1

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHH-HcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC---------------
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIA-RDGNMPNLILAGPPGTGKTTSILALAHELLGPNYR---------------   76 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l-~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~---------------   76 (331)
                      +||.+||||.+|++++|++++++.+.+++ ..+..+|++|+||+|+|||++++.+++.+.+...+               
T Consensus         2 ~~w~~kyrP~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~   81 (354)
T 1sxj_E            2 SLWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNR   81 (354)
T ss_dssp             --CTTTTCCCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC--------------
T ss_pred             CcchhccCCCCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccc
Confidence            48999999999999999999999999999 88888899999999999999999999987664321               


Q ss_pred             ---------CceEEeecCCCCChH--hHHHHHHHHHhcccC------CC-CCCceEEEEeCCCCCCHHHHHHHHHHHHHh
Q 020071           77 ---------EAVMELNASDDRGID--VVRNKIKMFAQKKVT------LP-PGKHKVVVLDEADSMTAGAQQALRRTMEIY  138 (331)
Q Consensus        77 ---------~~~~~~~~~~~~~~~--~i~~~i~~~~~~~~~------~~-~~~~~vviide~d~l~~~~~~~Ll~~le~~  138 (331)
                               ..++.++..+.....  .+++.+..+......      .. .++++++||||++.++...+++|+++++++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~  161 (354)
T 1sxj_E           82 KLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY  161 (354)
T ss_dssp             ----CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHS
T ss_pred             cceeeeecccceEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhh
Confidence                     123445543321111  356666655432210      00 346899999999999999999999999999


Q ss_pred             cCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHhcCCCHHHHHHHHHHHh
Q 020071          139 SNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV-PEGLEAIIFTADGDMRQALNNLQATY  217 (331)
Q Consensus       139 ~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~-~~~~~~l~~~~~g~~r~~~~~l~~~~  217 (331)
                      +.++.+|++|+++.++.++++|||..+.|+|++.+++..++..+++++|+.++ +++++.+++.++||+|.+++.++.+.
T Consensus       162 ~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~i~~~~~G~~r~a~~~l~~~~  241 (354)
T 1sxj_E          162 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMA  241 (354)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHHHHHHHTHHH
T ss_pred             cCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999 99999999999999999999999886


Q ss_pred             hCCC-ccchhhhhhhcCCCCHHHHHHHHHHHHcCC----HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc-cChHhHH
Q 020071          218 SGFR-FVNQENVFKVCDQPHPLHVKNMVRNVLEGK----FDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE-MAEHLKL  291 (331)
Q Consensus       218 ~~~~-~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~----~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~-~~~~~~~  291 (331)
                      .... .|+.+++  +........++++++++..++    ...+...+.+++..|+++.+|+..+...+.... ++...+.
T Consensus       242 ~~~~~~i~~~~~--~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~~~~~~~l~  319 (354)
T 1sxj_E          242 LNNELALKSSSP--IIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIPANIILKELTFSLLDVETLNTTNKS  319 (354)
T ss_dssp             HTTTTEECSSCC--CCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHTTTTCTTSCHHHHH
T ss_pred             HhCCCCcCcCcC--CCCccHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhccCCCHHHHH
Confidence            5443 6776654  223334467899999998754    445666677788899999999988877655543 7888899


Q ss_pred             HHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          292 EFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       292 ~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      ++++.+++++++++.|.++.++|+.++.+++.++
T Consensus       320 ~~~~~l~~~d~~l~~g~~~~~~le~~~~~~~~~~  353 (354)
T 1sxj_E          320 SIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCL  353 (354)
T ss_dssp             HHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999865

>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=100.00  E-value=4e-40  Score=298.66  Aligned_cols=312  Identities=18%  Similarity=0.234  Sum_probs=273.1

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCC--------------
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYR--------------   76 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~--------------   76 (331)
                      -.||.++|+|..|++++|+++.++.+...+..+..+| ++|+||+|+|||++++.+++.+.|....              
T Consensus         3 ~~~l~~k~rp~~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~   82 (373)
T 1jr3_A            3 YQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREI   82 (373)
T ss_dssp             CCCHHHHTCCCSTTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHH
T ss_pred             cHHHHHhhCCCchhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHH
Confidence            3589999999999999999999999999999999888 7999999999999999999999875321              


Q ss_pred             -----CceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071           77 -----EAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus        77 -----~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                           .+++.++.....+.+.+++.+..+...+.   .++++++||||+|.++.+.++.|++++++++.++++|++++..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~  159 (373)
T 1jr3_A           83 EQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPA---RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDP  159 (373)
T ss_dssp             HTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCS---SSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCG
T ss_pred             hccCCCceEEecccccCCHHHHHHHHHHHhhccc---cCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCCh
Confidence                 13556665554556677887777665554   5678999999999999999999999999999999999999999


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhhh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVFK  230 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~~  230 (331)
                      .++.+++++||..+.|.|++.+++..++..++++.|+.+++++++.+++.++||+|.+.+.++++. ...+.|+.++|.+
T Consensus       160 ~~l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~~~~a~~~l~~~~~G~~r~~~~~l~~~~~~~~~~i~~~~v~~  239 (373)
T 1jr3_A          160 QKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSA  239 (373)
T ss_dssp             GGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHSSSCHHHHHHHHHHHHHHTTTCBCHHHHHH
T ss_pred             HhCcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHhcCCcccHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999998764 3456799999999


Q ss_pred             hcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-----------c---------------
Q 020071          231 VCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-----------E---------------  284 (331)
Q Consensus       231 ~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-----------~---------------  284 (331)
                      +++......++++++++..++...++.++.++...|.++..++..+.+.++.+           .               
T Consensus       240 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~g~~~~~~l~~l~~~~r~l~~~~~~~~~~~~~~~~~~~~~~~~a~~  319 (373)
T 1jr3_A          240 MLGTLDDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPAALGNDMAAIELRMRELART  319 (373)
T ss_dssp             HTTCCCHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHTTCTTCCCSGGGGTHHHHHHHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHhhcCccccccchhHHHHHHHHHHh
Confidence            99999899999999999999999999999999999999998888776655431           0               


Q ss_pred             cChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh
Q 020071          285 MAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       285 ~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~  326 (331)
                      ++...+.+++..+.+++.+++.+.++.+.+|.++++++....
T Consensus       320 ~~~~~l~~~~~~l~~~~~~lk~~~~~~l~le~~ll~~~~~~~  361 (373)
T 1jr3_A          320 IPPTDIQLYYQTLLIGRKELPYAPDRRMGVEMTLLRALAFHP  361 (373)
T ss_dssp             SCHHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhcCC
Confidence            233334588899999999999999999999999999987643

>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=100.00  E-value=2.8e-38  Score=276.68  Aligned_cols=281  Identities=17%  Similarity=0.149  Sum_probs=237.4

Q ss_pred             cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh-cCCCCCCceEEeecCC-CCChHhHHHHHHHHHhcccC
Q 020071           29 GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL-LGPNYREAVMELNASD-DRGIDVVRNKIKMFAQKKVT  106 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l-~~~~~~~~~~~~~~~~-~~~~~~i~~~i~~~~~~~~~  106 (331)
                      ||+++++.|.+.+++++.|+++||||+|+|||++|+++++.. .|.....++..+++.+ ..+++++++.++.+...++ 
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~-   79 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPE-   79 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCS-
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccc-
Confidence            788999999999999995568999999999999999999863 2333356788888764 6788999999988887776 


Q ss_pred             CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhc
Q 020071          107 LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEE  186 (331)
Q Consensus       107 ~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~  186 (331)
                        .++++|+||||+|.|+.+++|+|+++||+||++++||++|+++++++++++||  +++|+|++++++.+|+.+++   
T Consensus        80 --~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR--~~~f~~l~~~~i~~~L~~~~---  152 (305)
T 2gno_A           80 --LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR--VFRVVVNVPKEFRDLVKEKI---  152 (305)
T ss_dssp             --SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT--SEEEECCCCHHHHHHHHHHH---
T ss_pred             --cCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce--eEeCCCCCHHHHHHHHHHHh---
Confidence              67899999999999999999999999999999999999999999999999999  99999999999999999887   


Q ss_pred             CCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhC--------CCccchhhhhhhcCCCCHH--HHHHHHHHHHcCCHHHHH
Q 020071          187 KVPYVPEGLEAIIFTADGDMRQALNNLQATYSG--------FRFVNQENVFKVCDQPHPL--HVKNMVRNVLEGKFDDAC  256 (331)
Q Consensus       187 ~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~--------~~~i~~~~v~~~~~~~~~~--~i~~l~~~~~~~~~~~~~  256 (331)
                        .++++++    +.++||+|.+++.++.....        ...-+.++|..++..+.+.  .++++++++.+++..+++
T Consensus       153 --~i~~~~~----~~~~g~~~~al~~l~~~~~~~~~l~~~~~~~~~~~~v~~~~~~~~~~~~~v~~l~~ai~~~~~~~a~  226 (305)
T 2gno_A          153 --GDLWEEL----PLLERDFKTALEAYKLGAEKLSGLMESLKVLETEKLLKKVLSKGLEGYLACRELLERFSKVESKEFF  226 (305)
T ss_dssp             --TTHHHHC----GGGGTCHHHHHHHHHHHHHHHHHHHHHHHHSCHHHHTTTTTCSHHHHHHHHHHHHHHHHHSCGGGHH
T ss_pred             --CCCHHHH----HHHCCCHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHccCCcchHHHHHHHHHHHCCCHHHHH
Confidence              3666665    55799999999888532100        0011467888888887755  899999999999999999


Q ss_pred             HHHHHHHH--cCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHH
Q 020071          257 SGLKQLYD--LGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICD---GVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       257 ~~l~~l~~--~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~---~~~~~l~l~~l~~~l~~~~  325 (331)
                      ..+++|+.  .|+++.+++..+++.+...+  .....+.++.++.+++++..   |+|+.++|+.++.+++...
T Consensus       227 ~~~~~l~~~~~g~~~~~~i~~~~r~l~~~~--~~~~~~~l~~~~~~~~~~~~k~~g~~~~lql~~l~~~~~~~~  298 (305)
T 2gno_A          227 ALFDQVTNTITGKDAFLLIQRLTRIILHEN--TWESVEDQKSVSFLDSILRVKIANLNNKLTLMNILAIHRERK  298 (305)
T ss_dssp             HHHHHHHHHSCTHHHHHHHHHHHHHHHHTS--CCCSHHHHHHHHHHHHHHTCCGGGCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcCCCHHHHHHHHHHHHHhhc--hhhhHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhc
Confidence            99999998  89999999999888887644  34446788899999999998   9999999999999999554

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=100.00  E-value=1.9e-36  Score=278.33  Aligned_cols=265  Identities=22%  Similarity=0.298  Sum_probs=223.4

Q ss_pred             CCCCchhhhcCCCCCCccccCHHHH---HHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           10 AYDIPWVEKYRPTKVCDIVGNLDAV---ARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~ig~~~~~---~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      ++..||++++||.+|++++|+++++   ..|...+..+..++++||||+|+|||++|+.+++.+     ..+++.+++..
T Consensus        11 ~~~~pla~r~rP~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~-----~~~f~~l~a~~   85 (447)
T 3pvs_A           11 NTFQPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA-----NADVERISAVT   85 (447)
T ss_dssp             ---CCHHHHTCCCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT-----TCEEEEEETTT
T ss_pred             cccCChHHHhCCCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh-----CCCeEEEEecc
Confidence            4446999999999999999999999   799999999998889999999999999999999998     66788888765


Q ss_pred             CCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC--CCCCChhhhcccce
Q 020071           87 DRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV--SSKIIEPIQSRCAI  164 (331)
Q Consensus        87 ~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~--~~~l~~~l~sr~~~  164 (331)
                      . +...+++.+........   .+++.++||||+|.++...++.|++++++  ..+++|++++.  ...+.+++.|||.+
T Consensus        86 ~-~~~~ir~~~~~a~~~~~---~~~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~aL~sR~~v  159 (447)
T 3pvs_A           86 S-GVKEIREAIERARQNRN---AGRRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSALLSRARV  159 (447)
T ss_dssp             C-CHHHHHHHHHHHHHHHH---TTCCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHHHHTTEEE
T ss_pred             C-CHHHHHHHHHHHHHhhh---cCCCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHHHhCceeE
Confidence            4 67777877777665544   56789999999999999999999999997  45777777643  45889999999999


Q ss_pred             eeecCCCHHHHHHHHHHHHHh-------cCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-------CCCccchhhhhh
Q 020071          165 VRFSRLSDEEILSRLMVVVQE-------EKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-------GFRFVNQENVFK  230 (331)
Q Consensus       165 i~~~~~~~~~~~~~l~~~~~~-------~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-------~~~~i~~~~v~~  230 (331)
                      +.|.|++.+++..++.+.+..       .++.+++++++.|++.++||+|.+++.++.+..       +...||.+++.+
T Consensus       160 ~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~a~~~a~~~~~~~~~It~e~v~~  239 (447)
T 3pvs_A          160 YLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADMAEVDDSGKRVLKPELLTE  239 (447)
T ss_dssp             EECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSCBCTTSCEECCHHHHHH
T ss_pred             EeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccccCCCCccCHHHHHH
Confidence            999999999999999999886       567799999999999999999999999998752       224799999999


Q ss_pred             hcCCC----------CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-ccc
Q 020071          231 VCDQP----------HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEM  285 (331)
Q Consensus       231 ~~~~~----------~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~  285 (331)
                      ++...          +++.+..+++++.+.|.++++.|+.+|+..|++|..|.+.+.+.+.+ +|+
T Consensus       240 ~l~~~~~~~dk~gd~~yd~isal~ksirgsd~daAl~~la~ml~~Gedp~~i~rrl~~~a~edig~  305 (447)
T 3pvs_A          240 IAGERSARFDNKGDRFYDLISALHKSVRGSAPDAALYWYARIITAGGDPLYVARRCLAIASEDVGN  305 (447)
T ss_dssp             HHTCCCCC---CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTGG
T ss_pred             HHhhhhhccCCccchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccC
Confidence            88775          33677888889999999999999999999999999999999887765 565

>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=100.00  E-value=4.3e-36  Score=267.64  Aligned_cols=282  Identities=17%  Similarity=0.186  Sum_probs=222.3

Q ss_pred             CHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-------------------CCceEEeecC---C
Q 020071           30 NLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-------------------REAVMELNAS---D   86 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~---~   86 (331)
                      +++.++.+.+.+++++.+| +||+||+|+|||++|+.+++.+.|...                   ..++..+++.   .
T Consensus         7 ~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   86 (334)
T 1a5t_A            7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKN   86 (334)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCS
T ss_pred             hHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCC
Confidence            3458999999999999999 899999999999999999999998642                   1456777764   4


Q ss_pred             CCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceee
Q 020071           87 DRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVR  166 (331)
Q Consensus        87 ~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~  166 (331)
                      ..+++++++.++.+...+.   .++++|+||||+|.++.+++|+|++++|+|+.+++||++|+++++++++++|||+.+.
T Consensus        87 ~~~i~~ir~l~~~~~~~~~---~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~  163 (334)
T 1a5t_A           87 TLGVDAVREVTEKLNEHAR---LGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHY  163 (334)
T ss_dssp             SBCHHHHHHHHHHTTSCCT---TSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             CCCHHHHHHHHHHHhhccc---cCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeee
Confidence            5678889998888776665   6789999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcCCCCHHHHHHHHHH
Q 020071          167 FSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCDQPHPLHVKNMVRN  246 (331)
Q Consensus       167 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~~~~~~~i~~l~~~  246 (331)
                      |+|++.+++.+|+.+++     .+++++++.+++.++|++|.+++.++........++.+.+..+...   ..++++++.
T Consensus       164 ~~~~~~~~~~~~L~~~~-----~~~~~~~~~l~~~s~G~~r~a~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~  235 (334)
T 1a5t_A          164 LAPPPEQYAVTWLSREV-----TMSQDALLAALRLSAGSPGAALALFQGDNWQARETLCQALAYSVPS---GDWYSLLAA  235 (334)
T ss_dssp             CCCCCHHHHHHHHHHHC-----CCCHHHHHHHHHHTTTCHHHHHHTTSSHHHHHHHHHHHHHHHHHHH---CCCGGGHHH
T ss_pred             CCCCCHHHHHHHHHHhc-----CCCHHHHHHHHHHcCCCHHHHHHHhccchHHHHHHHHHHHHHHHhC---hHHHHHHHH
Confidence            99999999999998864     6799999999999999999999998765422223344444443321   112234555


Q ss_pred             HHcCCHHHHHHHHH----HHHHcC-----CCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHh--cCCCchHHHH
Q 020071          247 VLEGKFDDACSGLK----QLYDLG-----YSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRIC--DGVGSYLQLC  315 (331)
Q Consensus       247 ~~~~~~~~~~~~l~----~l~~~g-----~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~--~~~~~~l~l~  315 (331)
                      +.+.+....+.++.    +++...     ....+....+.++++.  ++...+.++++.+.+++++++  .|+|+++++|
T Consensus       236 l~~~~~~~~l~~l~~~~rdll~~~~~~~~~~~~~~~~~~~~~a~~--~~~~~l~~~~~~l~~~~~~l~~~~~~n~~l~le  313 (334)
T 1a5t_A          236 LNHEQAPARLHWLATLLMDALKRHHGAAQVTNVDVPGLVAELANH--LSPSRLQAILGDVCHIREQLMSVTGINRELLIT  313 (334)
T ss_dssp             HCSTTHHHHHHHHHHHHHHHTCC------CCCTTCHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHCCSSHHHHHH
T ss_pred             HhcccHHHHHHHHHHHHHHHHHhccCCccccCHHHHHHHHHHHHh--CCHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            55556655554444    443221     1112233445555565  677888999999999999999  9999999999


Q ss_pred             HHHHHHHHH
Q 020071          316 GLLAKLSIV  324 (331)
Q Consensus       316 ~l~~~l~~~  324 (331)
                      .++++++..
T Consensus       314 ~ll~~l~~~  322 (334)
T 1a5t_A          314 DLLLRIEHY  322 (334)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999864

>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=100.00  E-value=9.1e-34  Score=253.96  Aligned_cols=279  Identities=11%  Similarity=0.081  Sum_probs=236.6

Q ss_pred             HHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCC-ceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCce
Q 020071           36 RLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYRE-AVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHK  113 (331)
Q Consensus        36 ~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~-~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~  113 (331)
                      .+.+.++ ++.+| ++||||+|+||++.+..+++.+.|.++.. ..+.++.     ..++++.++.+...++   +++++
T Consensus         8 ~l~~~l~-~~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~pl---f~~~k   78 (343)
T 1jr3_D            8 QLRAQLN-EGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP-----NTDWNAIFSLCQAMSL---FASRQ   78 (343)
T ss_dssp             THHHHHH-HCCCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT-----TCCHHHHHHHHHHHHH---CCSCE
T ss_pred             HHHHHHh-cCCCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC-----CCCHHHHHHHhcCcCC---ccCCe
Confidence            3455666 45556 79999999999999999999987654322 2344442     2467788888878777   78899


Q ss_pred             EEEEeCCCC-CCHHHHHHHHHHHHHhcCCcEEEEeeCCC------CCCChhhhcccceeeecCCCHHHHHHHHHHHHHhc
Q 020071          114 VVVLDEADS-MTAGAQQALRRTMEIYSNSTRFALACNVS------SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEE  186 (331)
Q Consensus       114 vviide~d~-l~~~~~~~Ll~~le~~~~~~~~I~~~~~~------~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~  186 (331)
                      +|||||+|. ++.+.+++|++++++||+++++|++++..      .++.+++.|||.++.|.|++.+++..|+.++++++
T Consensus        79 vvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~~~~  158 (343)
T 1jr3_D           79 TLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQL  158 (343)
T ss_dssp             EEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHHHHc
Confidence            999999999 99999999999999999999999998763      46889999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh--CCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 020071          187 KVPYVPEGLEAIIFTADGDMRQALNNLQATYS--GFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYD  264 (331)
Q Consensus       187 ~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~--~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~  264 (331)
                      |+.+++++++.|++.++||++.+.+++++++.  +.+.||.++|.++++......++++++++..++..+++.++.+|..
T Consensus       159 g~~i~~~a~~~l~~~~~gdl~~~~~elekl~l~~~~~~It~e~V~~~~~~~~~~~if~l~~ai~~~d~~~al~~l~~l~~  238 (343)
T 1jr3_D          159 NLELDDAANQVLCYCYEGNLLALAQALERLSLLWPDGKLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHILQQLRL  238 (343)
T ss_dssp             TCEECHHHHHHHHHSSTTCHHHHHHHHHHHHHHCTTCEECHHHHHHHHHHHCCCCHHHHHHHHTTSCHHHHHHHHTSSTT
T ss_pred             CCCCCHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHhhhhcCCHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999998863  4568999999998887777889999999999999999999999999


Q ss_pred             cCCCHHHHHHHHHHHHHhc-------------------c---------------cChHhHHHHHHHHHHHHHHHhcCC--
Q 020071          265 LGYSPTDIITTLFRIIKNY-------------------E---------------MAEHLKLEFMKEAGFAHMRICDGV--  308 (331)
Q Consensus       265 ~g~~~~~i~~~l~~~~~~~-------------------~---------------~~~~~~~~~~~~l~~~~~~l~~~~--  308 (331)
                      .|+++..|+..+.+.++.+                   +               ++...+.+++..+.+++.+++++.  
T Consensus       239 ~g~~~~~il~~l~~~~r~l~~~~~~~~~g~~~~i~~~l~i~~~~~~~~~~~~~~~s~~~L~~~l~~l~~~d~~lK~~~~~  318 (343)
T 1jr3_D          239 EGSEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWQNRRGMMGEALNRLSQTQLRQAVQLLTRTELTLKQDYGQ  318 (343)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHHTCSSSSCHHHHHHHHTCCSSHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHSSCS
T ss_pred             CCCcHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHcCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCC
Confidence            9999999998876655432                   1               122223588899999999999864  


Q ss_pred             CchHHHHHHHHHHHH
Q 020071          309 GSYLQLCGLLAKLSI  323 (331)
Q Consensus       309 ~~~l~l~~l~~~l~~  323 (331)
                      ++++.||.++++++.
T Consensus       319 ~~~~~le~l~l~l~~  333 (343)
T 1jr3_D          319 SVWAELEGLSLLLCH  333 (343)
T ss_dssp             CHHHHHHHHHHHTTS
T ss_pred             CHHHHHHHHHHHHcC
Confidence            778999999999874

>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=100.00  E-value=1.8e-31  Score=224.01  Aligned_cols=221  Identities=46%  Similarity=0.786  Sum_probs=195.3

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID   91 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~   91 (331)
                      ..||.++|+|..|++++|++..+..+..++..+..++++|+||+|+|||++++.+++.+.+......++.+++....+.+
T Consensus         4 ~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   83 (226)
T 2chg_A            4 FEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGID   83 (226)
T ss_dssp             CCCHHHHTSCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHH
T ss_pred             hhhHHHhcCCCCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChH
Confidence            35899999999999999999999999999999888789999999999999999999998766666778889888776766


Q ss_pred             hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCC
Q 020071           92 VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLS  171 (331)
Q Consensus        92 ~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~  171 (331)
                      .+.+.+..+..... ...+++.+++|||+|.+....++.|++++++++.++++|++++....+.+.+.+|+..+.|+|++
T Consensus        84 ~~~~~~~~~~~~~~-~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~  162 (226)
T 2chg_A           84 VVRHKIKEFARTAP-IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVP  162 (226)
T ss_dssp             HHHHHHHHHHTSCC-STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCC
T ss_pred             HHHHHHHHHhcccC-CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCC
Confidence            66666666554321 11356889999999999999999999999998889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhcC
Q 020071          172 DEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCD  233 (331)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~~  233 (331)
                      .+++..++..++...+..+++++++.+++.++||+|.+.+.++.++...+.|+.+++.++++
T Consensus       163 ~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~~~~I~~~~v~~~~~  224 (226)
T 2chg_A          163 KEAMKKRLLEICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA  224 (226)
T ss_dssp             HHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSCBCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCceecHHHHHHHhc
Confidence            99999999999998899999999999999999999999999998876567899998887654

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.97  E-value=2.6e-29  Score=213.65  Aligned_cols=220  Identities=24%  Similarity=0.325  Sum_probs=181.8

Q ss_pred             CCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCC-------------
Q 020071           11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYR-------------   76 (331)
Q Consensus        11 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~-------------   76 (331)
                      ...||.++|+|..|++++|+++.++.+..++..+..++ ++|+||+|+|||++++.+++.+.+....             
T Consensus         9 ~~~~~~~~~~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (250)
T 1njg_A            9 SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCRE   88 (250)
T ss_dssp             --CCHHHHTCCCSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHH
T ss_pred             HHHHHhhccCCccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            34689999999999999999999999999999988776 7999999999999999999988653211             


Q ss_pred             ------CceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071           77 ------EAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus        77 ------~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                            ..+..++.......+.+.+.+......+.   .+++.++||||+|.++...++.|++.+++++.++.+|++++.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~  165 (250)
T 1njg_A           89 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPA---RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTD  165 (250)
T ss_dssp             HHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCS---SSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESC
T ss_pred             HhccCCcceEEecCcccccHHHHHHHHHHhhhchh---cCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCC
Confidence                  12344444433333444444443322222   456789999999999999999999999998889999999999


Q ss_pred             CCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-hCCCccchhhhh
Q 020071          151 SSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-SGFRFVNQENVF  229 (331)
Q Consensus       151 ~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-~~~~~i~~~~v~  229 (331)
                      ...+.+++.+|+..+.|+|++.+++.+++..++...+..+++++++.+++.++|++|.+.+.++.+. .+.+.|+.+++.
T Consensus       166 ~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~~~~~~~~~~~~~~~~~~i~~~~v~  245 (250)
T 1njg_A          166 PQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVS  245 (250)
T ss_dssp             GGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHTTTTSSBCHHHHH
T ss_pred             hHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhccCceecHHHHH
Confidence            8899999999999999999999999999999999999999999999999999999999999998775 344579999888


Q ss_pred             hhcC
Q 020071          230 KVCD  233 (331)
Q Consensus       230 ~~~~  233 (331)
                      ++++
T Consensus       246 ~~~~  249 (250)
T 1njg_A          246 AMLG  249 (250)
T ss_dssp             HHSC
T ss_pred             HHhC
Confidence            7654

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.96  E-value=1.6e-28  Score=230.92  Aligned_cols=237  Identities=30%  Similarity=0.457  Sum_probs=185.2

Q ss_pred             CCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcC-----------------CCCeEEEeCCCCccHHHHHHHHHHH
Q 020071            7 SSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDG-----------------NMPNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus         7 ~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~-----------------~~~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +......+|++||+|.+|++++|++..++.+..++...                 ..++++|+||+|+|||++|+++++.
T Consensus        21 ~~~~~~~lW~ekyrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~  100 (516)
T 1sxj_A           21 PHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQE  100 (516)
T ss_dssp             -----CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCccCCCcccccCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            33445568999999999999999999999999998761                 2345899999999999999999999


Q ss_pred             hcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcc-c----C------CCCCCceEEEEeCCCCCCHHHH---HHHHHHH
Q 020071           70 LLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKK-V----T------LPPGKHKVVVLDEADSMTAGAQ---QALRRTM  135 (331)
Q Consensus        70 l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~-~----~------~~~~~~~vviide~d~l~~~~~---~~Ll~~l  135 (331)
                      +     +..++++++++......+...+....... .    .      ...+.+.++||||+|.++...+   +.|++++
T Consensus       101 l-----~~~~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l  175 (516)
T 1sxj_A          101 L-----GYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFC  175 (516)
T ss_dssp             T-----TCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHH
T ss_pred             c-----CCCEEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHH
Confidence            8     67889999988766554444333221110 0    0      0124678999999999976544   7888999


Q ss_pred             HHhcCCcEEEEeeCCCC-CCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHH
Q 020071          136 EIYSNSTRFALACNVSS-KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ  214 (331)
Q Consensus       136 e~~~~~~~~I~~~~~~~-~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~  214 (331)
                      +..  ..++|++++... ...+++++||..+.|++++.+++.+++..++.++++.+++++++.|++.++||+|.+++.++
T Consensus       176 ~~~--~~~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~GdiR~~i~~L~  253 (516)
T 1sxj_A          176 RKT--STPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLS  253 (516)
T ss_dssp             HHC--SSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHHT
T ss_pred             Hhc--CCCEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            874  456777777653 44567899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhCCCccchhhhhhhcC---CCCHHHHHHHHHHHHcC
Q 020071          215 ATYSGFRFVNQENVFKVCD---QPHPLHVKNMVRNVLEG  250 (331)
Q Consensus       215 ~~~~~~~~i~~~~v~~~~~---~~~~~~i~~l~~~~~~~  250 (331)
                      .++.....|+.+++.+++.   ......++++++.+..+
T Consensus       254 ~~~~~~~~It~~~v~~~~~~~~~~~~~~~f~~~~~il~~  292 (516)
T 1sxj_A          254 TISTTTKTINHENINEISKAWEKNIALKPFDIAHKMLDG  292 (516)
T ss_dssp             HHHHHSSCCCTTHHHHHHHHHHTTTTSHHHHHHHHHTBG
T ss_pred             HHHhcCCCCchHHHHHHHHhhccCCCCCHHHHHHHHhcC
Confidence            8877777899998877654   33444677777777754

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.95  E-value=7.2e-26  Score=202.27  Aligned_cols=208  Identities=15%  Similarity=0.206  Sum_probs=167.5

Q ss_pred             CCCCchhhhcCCCCCCccccCHHHHHHHHHHHHc-----CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           10 AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARD-----GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      .....|.++|+|.+|++++|++..+..+..++..     ...++++|+||+|+|||++|+++++.+     +.+++.+++
T Consensus        14 ~~~~~~~~~~~p~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~-----~~~~~~~~~   88 (338)
T 3pfi_A           14 SFDETYETSLRPSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM-----SANIKTTAA   88 (338)
T ss_dssp             ---------CCCCSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT-----TCCEEEEEG
T ss_pred             chhhhhhhccCCCCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh-----CCCeEEecc
Confidence            4556899999999999999999999999888875     334469999999999999999999998     667888888


Q ss_pred             CCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCcEEEE
Q 020071           85 SDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS------------------NSTRFAL  146 (331)
Q Consensus        85 ~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~------------------~~~~~I~  146 (331)
                      ........+...+..         .+.+.++||||++.++...++.|++.+++..                  +.+++|+
T Consensus        89 ~~~~~~~~~~~~~~~---------~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  159 (338)
T 3pfi_A           89 PMIEKSGDLAAILTN---------LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIG  159 (338)
T ss_dssp             GGCCSHHHHHHHHHT---------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEE
T ss_pred             hhccchhHHHHHHHh---------ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEE
Confidence            766554444444332         2457899999999999999999999998643                  1368899


Q ss_pred             eeCCCCCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-----hCC
Q 020071          147 ACNVSSKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-----SGF  220 (331)
Q Consensus       147 ~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-----~~~  220 (331)
                      ++|....+.+++++|+ ..+.|++++.+++..++...+...+..+++++++.+++.++||+|.+.+.++.+.     .+.
T Consensus       160 atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~~~  239 (338)
T 3pfi_A          160 ATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNKTCEEKAALEIAKRSRSTPRIALRLLKRVRDFADVNDE  239 (338)
T ss_dssp             EESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTTTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             eCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHhhcC
Confidence            9999888999999999 7899999999999999999999999999999999999999999999999998752     235


Q ss_pred             Cccchhhhhhh
Q 020071          221 RFVNQENVFKV  231 (331)
Q Consensus       221 ~~i~~~~v~~~  231 (331)
                      ..|+.+++...
T Consensus       240 ~~i~~~~~~~~  250 (338)
T 3pfi_A          240 EIITEKRANEA  250 (338)
T ss_dssp             SEECHHHHHHH
T ss_pred             CccCHHHHHHH
Confidence            56777776543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.94  E-value=2.1e-25  Score=201.49  Aligned_cols=219  Identities=20%  Similarity=0.239  Sum_probs=167.1

Q ss_pred             CCCchhhhcCCCC-CCccccCHHHHHH---HHHHHHcCCCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           11 YDIPWVEKYRPTK-VCDIVGNLDAVAR---LGIIARDGNMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        11 ~~~~~~~~~~p~~-~~~~ig~~~~~~~---l~~~l~~~~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      ..+++.++++|.. |++++|++..+..   +...+..+..+  +++|+||||+|||++|+++++.+.+.   .+++.+++
T Consensus        29 ~~l~l~~~~~p~~~~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~---~~~~~~~~  105 (368)
T 3uk6_A           29 RGLGLDDALEPRQASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD---TPFTAIAG  105 (368)
T ss_dssp             CSCCBCTTSCBCSEETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSS---CCEEEEEG
T ss_pred             hccCcccccCcCcchhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhccc---CCcccccc
Confidence            3457889999998 9999999999775   56667777765  59999999999999999999998542   34444442


Q ss_pred             CCC--------------------------------------------------CC-----hHhHHHHHHHHHhcccC--C
Q 020071           85 SDD--------------------------------------------------RG-----IDVVRNKIKMFAQKKVT--L  107 (331)
Q Consensus        85 ~~~--------------------------------------------------~~-----~~~i~~~i~~~~~~~~~--~  107 (331)
                      ...                                                  .+     ...+++.+..+......  .
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~  185 (368)
T 3uk6_A          106 SEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGK  185 (368)
T ss_dssp             GGGSCSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC
T ss_pred             hhhhhcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhcc
Confidence            210                                                  01     22334444333321110  0


Q ss_pred             CCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC------------CCCCCChhhhcccceeeecCCCHHHH
Q 020071          108 PPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACN------------VSSKIIEPIQSRCAIVRFSRLSDEEI  175 (331)
Q Consensus       108 ~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~------------~~~~l~~~l~sr~~~i~~~~~~~~~~  175 (331)
                      ....+.++||||+|.++.+.++.|++.+++++..+ ++++++            .+..+.+++++||..+.|+|++.+++
T Consensus       186 ~~~~~~vl~IDEi~~l~~~~~~~L~~~le~~~~~~-~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~  264 (368)
T 3uk6_A          186 AEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPV-LIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDT  264 (368)
T ss_dssp             ---CBCEEEEESGGGSBHHHHHHHHHHTTCTTCCE-EEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHH
T ss_pred             ccccCceEEEhhccccChHHHHHHHHHhhCcCCCe-eeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHH
Confidence            01114699999999999999999999999887765 444443            25678899999999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHhcC-CCHHHHHHHHHHHh-----hCCCccchhhhhhhcC
Q 020071          176 LSRLMVVVQEEKVPYVPEGLEAIIFTAD-GDMRQALNNLQATY-----SGFRFVNQENVFKVCD  233 (331)
Q Consensus       176 ~~~l~~~~~~~~~~i~~~~~~~l~~~~~-g~~r~~~~~l~~~~-----~~~~~i~~~~v~~~~~  233 (331)
                      ..+++.++...+..+++++++.+++.+. ||+|.+.+.++.+.     .+...|+.+++.+++.
T Consensus       265 ~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~~~It~~~v~~a~~  328 (368)
T 3uk6_A          265 KQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYS  328 (368)
T ss_dssp             HHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence            9999999999999999999999999998 99999999998753     3566899888877543

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=99.93  E-value=2.8e-24  Score=190.78  Aligned_cols=203  Identities=20%  Similarity=0.235  Sum_probs=165.0

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHc----C-CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARD----G-NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG   89 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~----~-~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (331)
                      |.++|+|.+|++++|++..+..+...+..    + ...+++|+||+|+|||++|+++++.+     +.+++.+++.....
T Consensus         2 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~-----~~~~~~~~~~~~~~   76 (324)
T 1hqc_A            2 EDLALRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL-----GVNLRVTSGPAIEK   76 (324)
T ss_dssp             ---CCCCCSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH-----TCCEEEECTTTCCS
T ss_pred             CccccCcccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEeccccCC
Confidence            67899999999999999999988887763    2 33459999999999999999999998     56677788776644


Q ss_pred             hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCcEEEEeeCCC
Q 020071           90 IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS------------------NSTRFALACNVS  151 (331)
Q Consensus        90 ~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~------------------~~~~~I~~~~~~  151 (331)
                      ...+...+.   . .    .+.+.++||||++.++...++.|++.+++..                  .++++|+++|..
T Consensus        77 ~~~l~~~l~---~-~----~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~  148 (324)
T 1hqc_A           77 PGDLAAILA---N-S----LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRP  148 (324)
T ss_dssp             HHHHHHHHT---T-T----CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCC
T ss_pred             hHHHHHHHH---H-h----ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCc
Confidence            333333221   1 1    2457799999999999999999999999743                  357899999999


Q ss_pred             CCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh-----CCCccch
Q 020071          152 SKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS-----GFRFVNQ  225 (331)
Q Consensus       152 ~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~-----~~~~i~~  225 (331)
                      ..+.+++.+|+ .++.|++++.+++..++...+...+..+++++++.++.+++|++|.+.+.++.+..     +...|+.
T Consensus       149 ~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~~~~~~i~~  228 (324)
T 1hqc_A          149 GLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITR  228 (324)
T ss_dssp             SSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCSCHHHHHHHHHHHTTTSTTTSCSCCCH
T ss_pred             ccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhcCCCCCH
Confidence            99999999999 58999999999999999999998899999999999999999999999999987642     2345777


Q ss_pred             hhhhh
Q 020071          226 ENVFK  230 (331)
Q Consensus       226 ~~v~~  230 (331)
                      +++..
T Consensus       229 ~~~~~  233 (324)
T 1hqc_A          229 ERALE  233 (324)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66654

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.93  E-value=1.5e-24  Score=200.81  Aligned_cols=120  Identities=18%  Similarity=0.199  Sum_probs=107.9

Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEee---------CC----CCCCChhhhcccceeeecCCCHHHHHHHH
Q 020071          113 KVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALAC---------NV----SSKIIEPIQSRCAIVRFSRLSDEEILSRL  179 (331)
Q Consensus       113 ~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~---------~~----~~~l~~~l~sr~~~i~~~~~~~~~~~~~l  179 (331)
                      +|+||||+|.|+.+++++|++++|+|+.. .||+++         ++    +.+++++++|||+.+.|+|++.+++.++|
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL  375 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAP-IVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQII  375 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCC-EEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCC-EEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHH
Confidence            69999999999999999999999999988 577777         44    67899999999999999999999999999


Q ss_pred             HHHHHhcCCCCCHHHHHHHHHhc-CCCHHHHHHHHHHH---h--hCCCccchhhhhhhcC
Q 020071          180 MVVVQEEKVPYVPEGLEAIIFTA-DGDMRQALNNLQAT---Y--SGFRFVNQENVFKVCD  233 (331)
Q Consensus       180 ~~~~~~~~~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~---~--~~~~~i~~~~v~~~~~  233 (331)
                      +.++..+++.++++++..++..+ +|++|.++++++.+   +  .+...|+.++|.++..
T Consensus       376 ~~~~~~~~~~~~~~~~~~i~~~a~~g~~r~a~~ll~~a~~~A~~~~~~~v~~~~v~~~~~  435 (456)
T 2c9o_A          376 KIRAQTEGINISEEALNHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISE  435 (456)
T ss_dssp             HHHHHHHTCCBCHHHHHHHHHHHHHSCHHHHHHTHHHHHHHHHHTTCSSBCHHHHHHHHH
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhhcCCCccCHHHHHHHHH
Confidence            99999999999999999999999 99999999999865   2  3667899999887543

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.91  E-value=8.3e-24  Score=179.51  Aligned_cols=211  Identities=12%  Similarity=0.120  Sum_probs=163.5

Q ss_pred             CCCCchhhhcCC-CCCCcccc---CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           10 AYDIPWVEKYRP-TKVCDIVG---NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        10 ~~~~~~~~~~~p-~~~~~~ig---~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      +.+.||..+++| .+|+++++   +..++..+..++..+..++++|+||+|+|||++++.+++.+.+.  +..+..+++.
T Consensus        12 ~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~--~~~~~~~~~~   89 (242)
T 3bos_A           12 PLQLSLPVHLPDDETFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL--ERRSFYIPLG   89 (242)
T ss_dssp             -CCCEEECCCCTTCSTTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEGG
T ss_pred             hhhcCCCCCCCCCCChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHH
Confidence            447799999999 79999996   46888889988887666679999999999999999999988654  2445555554


Q ss_pred             CCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHH--HHHHHHHHHHhcCC--cEEEEeeCCCC----CCChh
Q 020071           86 DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA--QQALRRTMEIYSNS--TRFALACNVSS----KIIEP  157 (331)
Q Consensus        86 ~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~--~~~Ll~~le~~~~~--~~~I~~~~~~~----~l~~~  157 (331)
                      +...  .+.+.+.     .    ..++.+++|||++.+....  ++.|+.+++.....  ..+|++++...    .+.+.
T Consensus        90 ~~~~--~~~~~~~-----~----~~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~  158 (242)
T 3bos_A           90 IHAS--ISTALLE-----G----LEQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPD  158 (242)
T ss_dssp             GGGG--SCGGGGT-----T----GGGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHH
T ss_pred             HHHH--HHHHHHH-----h----ccCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhh
Confidence            3211  1101110     0    2346799999999997665  88899988765432  24777776543    45689


Q ss_pred             hhccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhh
Q 020071          158 IQSRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFK  230 (331)
Q Consensus       158 l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~  230 (331)
                      +.+|+   .++.|+|++.++..+++...+...++.+++++++.+++.++||+|.+.+.++.+.    .....||.+++.+
T Consensus       159 l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~r~l~~~l~~~~~~a~~~~~~It~~~v~~  238 (242)
T 3bos_A          159 LVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMARDLRTLFDVLDRLDKASMVHQRKLTIPFVKE  238 (242)
T ss_dssp             HHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHH
T ss_pred             hhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHhCCCCcHHHHHH
Confidence            99999   8999999999999999999999899999999999999999999999999998763    2356688888877


Q ss_pred             hcC
Q 020071          231 VCD  233 (331)
Q Consensus       231 ~~~  233 (331)
                      ++.
T Consensus       239 ~l~  241 (242)
T 3bos_A          239 MLR  241 (242)
T ss_dssp             HHT
T ss_pred             Hhh
Confidence            543

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.91  E-value=1.6e-22  Score=183.87  Aligned_cols=282  Identities=14%  Similarity=0.133  Sum_probs=195.1

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHc----CC--CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARD----GN--MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~----~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      .+|..+|+|   ++++|++..+..+..++..    +.  .++++|+||+|+|||++++.+++.+.+.. +..++.+++..
T Consensus         8 ~~l~~~~~p---~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~i~~~~   83 (389)
T 1fnn_A            8 SVFSPSYVP---KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGFI   83 (389)
T ss_dssp             GGGSTTCCC---SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETTT
T ss_pred             hhcCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhc-CeeEEEEeCcc
Confidence            468888888   7899999999988888765    22  23689999999999999999999986542 34577788665


Q ss_pred             CCChH-hHHHHHHHHHhccc--C--------------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc----CCcEEE
Q 020071           87 DRGID-VVRNKIKMFAQKKV--T--------------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS----NSTRFA  145 (331)
Q Consensus        87 ~~~~~-~i~~~i~~~~~~~~--~--------------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~----~~~~~I  145 (331)
                      ..... .+......+.....  .              ...+++.+++|||++.++...++.|++++++.+    .++.+|
T Consensus        84 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI  163 (389)
T 1fnn_A           84 YRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALV  163 (389)
T ss_dssp             CCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEE
T ss_pred             CCCHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEE
Confidence            43322 22222211110000  0              002346799999999999999999999998654    478899


Q ss_pred             EeeCCC---CCCChhhhcccc--eeeecCCCHHHHHHHHHHHHHh--cCCCCCHHHHHHHHHhc---------CCCHHHH
Q 020071          146 LACNVS---SKIIEPIQSRCA--IVRFSRLSDEEILSRLMVVVQE--EKVPYVPEGLEAIIFTA---------DGDMRQA  209 (331)
Q Consensus       146 ~~~~~~---~~l~~~l~sr~~--~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~~---------~g~~r~~  209 (331)
                      ++++..   ..+.+.+.+|+.  .+.|+|++.+++.+++..++..  ....+++++++.+++.+         +||+|.+
T Consensus       164 ~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~  243 (389)
T 1fnn_A          164 IVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLA  243 (389)
T ss_dssp             EEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHH
T ss_pred             EEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHH
Confidence            999887   678889999986  6999999999999999998875  23478999999999999         8999999


Q ss_pred             HHHHHHHhh-----CCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH--HcC--CCHHHHHHHHHHHH
Q 020071          210 LNNLQATYS-----GFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLY--DLG--YSPTDIITTLFRII  280 (331)
Q Consensus       210 ~~~l~~~~~-----~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~--~~g--~~~~~i~~~l~~~~  280 (331)
                      .+.++.+..     +...|+.+++..+........+.+.++.+. .+...++..+..+.  ..|  .+..++...+..++
T Consensus       244 ~~~l~~a~~~a~~~~~~~i~~~~v~~~~~~~~~~~~~~~l~~l~-~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~  322 (389)
T 1fnn_A          244 IDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLP-LHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVC  322 (389)
T ss_dssp             HHHHHHHHHHHHHTTCSSCCHHHHHHHHHHHSCCCCHHHHHHSC-HHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHhhhhHHHHHHcCC-HHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHH
Confidence            999987642     456788888876543322222333333332 22334455554544  244  45566667666677


Q ss_pred             Hhccc---ChHhHHHHHHHHHH
Q 020071          281 KNYEM---AEHLKLEFMKEAGF  299 (331)
Q Consensus       281 ~~~~~---~~~~~~~~~~~l~~  299 (331)
                      +..++   +.....++++.+.+
T Consensus       323 ~~~~~~~~~~~~~~~~l~~L~~  344 (389)
T 1fnn_A          323 EEYGERPRVHSQLWSYLNDLRE  344 (389)
T ss_dssp             HHTTCCCCCHHHHHHHHHHHHH
T ss_pred             HHcCCCCCCHHHHHHHHHHHHh
Confidence            76553   44555566665543

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=99.90  E-value=5.7e-22  Score=176.37  Aligned_cols=205  Identities=19%  Similarity=0.230  Sum_probs=159.6

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcC-----CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDG-----NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~-----~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      +|.++++|..|++++|++.++..+...+..+     ...+++|+||+|+|||++++.++..+.     .++...++....
T Consensus        14 ~~~~~lr~~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~-----~~~~~~sg~~~~   88 (334)
T 1in4_A           14 SGVQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ-----TNIHVTSGPVLV   88 (334)
T ss_dssp             ---CTTSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT-----CCEEEEETTTCC
T ss_pred             HHHHHcCCccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhC-----CCEEEEechHhc
Confidence            5799999999999999999999888877653     334599999999999999999999983     334444444333


Q ss_pred             ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc------------------CCcEEEEeeCC
Q 020071           89 GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS------------------NSTRFALACNV  150 (331)
Q Consensus        89 ~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~------------------~~~~~I~~~~~  150 (331)
                      ....+......         ...+.|++|||++.+....++.|+..++...                  +.+.++.+++.
T Consensus        89 ~~~~l~~~~~~---------~~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~  159 (334)
T 1in4_A           89 KQGDMAAILTS---------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTR  159 (334)
T ss_dssp             SHHHHHHHHHH---------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESC
T ss_pred             CHHHHHHHHHH---------ccCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCC
Confidence            33333332211         1246799999999999888888888876532                  13556777888


Q ss_pred             CCCCChhhhcccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-----hCCCccc
Q 020071          151 SSKIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-----SGFRFVN  224 (331)
Q Consensus       151 ~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-----~~~~~i~  224 (331)
                      +..+.+.+++||. ...|.|++.+++.+++++.++..++.++++++..|++.++|++|.+.+.++.+.     .+.+.||
T Consensus       160 ~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~~~~~~It  239 (334)
T 1in4_A          160 SGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRIN  239 (334)
T ss_dssp             GGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBC
T ss_pred             cccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHcCCCCcC
Confidence            8899999999996 579999999999999999998889999999999999999999999999997642     3456788


Q ss_pred             hhhhhhhc
Q 020071          225 QENVFKVC  232 (331)
Q Consensus       225 ~~~v~~~~  232 (331)
                      .+.+.+++
T Consensus       240 ~~~v~~al  247 (334)
T 1in4_A          240 TDIVLKTM  247 (334)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88777644

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.90  E-value=1.3e-21  Score=177.61  Aligned_cols=278  Identities=17%  Similarity=0.117  Sum_probs=189.7

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHc----CCCCeEEEeCCCCccHHHHHHHHHHHhcCC----CCCCceEEeec
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARD----GNMPNLILAGPPGTGKTTSILALAHELLGP----NYREAVMELNA   84 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~   84 (331)
                      .+|..+|.|   ++++|++..+..+..++..    +...+++|+||+|+|||++++.+++.+.+.    +.+..++.+++
T Consensus        10 ~~l~~~~~p---~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (387)
T 2v1u_A           10 WVLLPDYVP---DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNA   86 (387)
T ss_dssp             HHHSTTCCC---SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEET
T ss_pred             HhcCCccCC---CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEEC
Confidence            356677777   7899999999999998854    344459999999999999999999987432    12456778887


Q ss_pred             CCCCChHh-------------------HHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH--HHHHHHHHHHHh-----
Q 020071           85 SDDRGIDV-------------------VRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG--AQQALRRTMEIY-----  138 (331)
Q Consensus        85 ~~~~~~~~-------------------i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~--~~~~Ll~~le~~-----  138 (331)
                      ........                   ..+....+.....  ..+++.+++|||+|.+...  .++.|..+++.+     
T Consensus        87 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~  164 (387)
T 2v1u_A           87 RHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLS--RLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGD  164 (387)
T ss_dssp             TTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHT--TSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC--
T ss_pred             CcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh--ccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCC
Confidence            65432221                   1111111111110  1344679999999999876  778888888754     


Q ss_pred             cCCcEEEEeeCCC---CCCChhhhccc--ceeeecCCCHHHHHHHHHHHHHh--cCCCCCHHHHHHHHHhcC---CCHHH
Q 020071          139 SNSTRFALACNVS---SKIIEPIQSRC--AIVRFSRLSDEEILSRLMVVVQE--EKVPYVPEGLEAIIFTAD---GDMRQ  208 (331)
Q Consensus       139 ~~~~~~I~~~~~~---~~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~~~---g~~r~  208 (331)
                      +.++.+|++++..   ..+.+.+.+|+  ..+.|+|++.+++..++..++..  .+..+++++++.+++.++   ||+|.
T Consensus       165 ~~~~~~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~  244 (387)
T 2v1u_A          165 RVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARR  244 (387)
T ss_dssp             ---CEEEEECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHH
T ss_pred             CceEEEEEEECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHH
Confidence            5577899999876   67889999998  67999999999999999999875  566789999999999998   99999


Q ss_pred             HHHHHHHHh-----hCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHH-HHcC---CCHHHHHHHHHHH
Q 020071          209 ALNNLQATY-----SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQL-YDLG---YSPTDIITTLFRI  279 (331)
Q Consensus       209 ~~~~l~~~~-----~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l-~~~g---~~~~~i~~~l~~~  279 (331)
                      +.+.++.+.     .+...|+.+++.+++.....+   .+.+.+...+..+...++.-+ +..|   ....+++..+..+
T Consensus       245 ~~~~l~~a~~~a~~~~~~~i~~~~v~~a~~~~~~~---~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~  321 (387)
T 2v1u_A          245 ALDLLRVAGEIAERRREERVRREHVYSARAEIERD---RVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKEL  321 (387)
T ss_dssp             HHHHHHHHHHHHHHTTCSCBCHHHHHHHHHHHHHH---HHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHhhc---hHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHH
Confidence            999998764     245679999888765443222   233444455555544433322 1123   2345666666667


Q ss_pred             HHhccc---ChHhHHHHHHHHH
Q 020071          280 IKNYEM---AEHLKLEFMKEAG  298 (331)
Q Consensus       280 ~~~~~~---~~~~~~~~~~~l~  298 (331)
                      ++..+.   +.....++++.+.
T Consensus       322 ~~~~~~~~~~~~~~~~~l~~L~  343 (387)
T 2v1u_A          322 TSTLGLEHVTLRRVSGIISELD  343 (387)
T ss_dssp             HHHTTCCCCCHHHHHHHHHHHH
T ss_pred             HHhcCCCCCCHHHHHHHHHHHH
Confidence            766653   3334444444444

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.89  E-value=3.6e-22  Score=181.23  Aligned_cols=275  Identities=17%  Similarity=0.111  Sum_probs=184.6

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHc---C-CCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----C-CCceEE
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARD---G-NMPNLILAGPPGTGKTTSILALAHELLGPN-----Y-REAVME   81 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~---~-~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~-~~~~~~   81 (331)
                      ..+|..+|+|   ++++|+++.++.+..++..   + ..++++|+||+|+|||++++.+++.+.+..     . ...++.
T Consensus        10 ~~~l~~~~~p---~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~   86 (384)
T 2qby_B           10 KVFIDPLSVF---KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAY   86 (384)
T ss_dssp             TTTTCHHHHC---SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEE
T ss_pred             HhhcCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEE
Confidence            4578999999   7899999999988877654   3 334589999999999999999999874321     1 456777


Q ss_pred             eecCCCC-ChH-hHHHH-------------------HHHHHhcccCCCCCCceEEEEeCCCCCCHHH-HHH-HHHHHHHh
Q 020071           82 LNASDDR-GID-VVRNK-------------------IKMFAQKKVTLPPGKHKVVVLDEADSMTAGA-QQA-LRRTMEIY  138 (331)
Q Consensus        82 ~~~~~~~-~~~-~i~~~-------------------i~~~~~~~~~~~~~~~~vviide~d~l~~~~-~~~-Ll~~le~~  138 (331)
                      +++.... ... .+...                   +..+....    ...+.+++|||+|.+.... ++. +..+++..
T Consensus        87 i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l----~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~  162 (384)
T 2qby_B           87 VNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGT----RNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD  162 (384)
T ss_dssp             EEHHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHH----SSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS
T ss_pred             EECccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHh----ccCCCEEEEECHHHhccCCCCceeHHHHhcCC
Confidence            7764322 111 11111                   11111111    1222399999999987653 555 55555544


Q ss_pred             cCCcEEEEeeCCC---CCCChhhhcc-cceeeecCCCHHHHHHHHHHHHHh--cCCCCCHHHHHHHHHhcC---CCHHHH
Q 020071          139 SNSTRFALACNVS---SKIIEPIQSR-CAIVRFSRLSDEEILSRLMVVVQE--EKVPYVPEGLEAIIFTAD---GDMRQA  209 (331)
Q Consensus       139 ~~~~~~I~~~~~~---~~l~~~l~sr-~~~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~~~---g~~r~~  209 (331)
                       .++.+|++++..   ..+.+.+.+| +..+.|+|++.+++.+++..++..  .+..+++++++.+++.++   ||+|.+
T Consensus       163 -~~~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a  241 (384)
T 2qby_B          163 -ANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKA  241 (384)
T ss_dssp             -SCEEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHH
T ss_pred             -cceEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHH
Confidence             678899999876   6788999999 478999999999999999998875  456789999999999998   999999


Q ss_pred             HHHHHHHh---hCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcc--
Q 020071          210 LNNLQATY---SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNYE--  284 (331)
Q Consensus       210 ~~~l~~~~---~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~~--  284 (331)
                      ++.++.+.   .+...|+.+++.+++......   .+...+...+..+ ...+..+.. +....++...+..+++.+|  
T Consensus       242 ~~~l~~a~~~a~~~~~i~~~~v~~~~~~~~~~---~~~~~~~~l~~~~-~~~l~al~~-~~~~~~~~~~~~~~~~~~g~~  316 (384)
T 2qby_B          242 VNLLFRAAQLASGGGIIRKEHVDKAIVDYEQE---RLIEAVKALPFHY-KLALRSLIE-SEDVMSAHKMYTDLCNKFKQK  316 (384)
T ss_dssp             HHHHHHHHHHTTSSSCCCHHHHHHHHHHHHHH---HHHHHHHSSCHHH-HHHHHHHHT-CCBHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHhcCCCccCHHHHHHHHHHHhcc---hHHHHHHcCCHHH-HHHHHHHHH-hcccChHHHHHHHHHHHcCCC
Confidence            99998764   234578988888765543222   2333333334333 333444443 3332455556666677665  


Q ss_pred             -cChHhHHHHHHHHHH
Q 020071          285 -MAEHLKLEFMKEAGF  299 (331)
Q Consensus       285 -~~~~~~~~~~~~l~~  299 (331)
                       .+.....+++..+.+
T Consensus       317 ~~~~~~~~~~l~~L~~  332 (384)
T 2qby_B          317 PLSYRRFSDIISELDM  332 (384)
T ss_dssp             CCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHh
Confidence             334445555555543

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.88  E-value=2.8e-21  Score=175.59  Aligned_cols=188  Identities=22%  Similarity=0.223  Sum_probs=149.0

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHc------------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARD------------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .|.++|+|..|++++|++.+++.+...+..            ....++|||||+|+|||++|+++++.+     +.+++.
T Consensus       104 ~~~~~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~-----~~~~~~  178 (389)
T 3vfd_A          104 EIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES-----NATFFN  178 (389)
T ss_dssp             TTBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT-----TCEEEE
T ss_pred             hhhccCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh-----cCcEEE
Confidence            689999999999999999999999888732            122459999999999999999999998     678899


Q ss_pred             eecCCCCCh------HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC-----------CHHHHHHHHHHHHHh----cC
Q 020071           82 LNASDDRGI------DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM-----------TAGAQQALRRTMEIY----SN  140 (331)
Q Consensus        82 ~~~~~~~~~------~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l-----------~~~~~~~Ll~~le~~----~~  140 (331)
                      +++....+.      ..+...+..+..       ....+|||||+|.+           ....++.|+..++..    +.
T Consensus       179 v~~~~l~~~~~g~~~~~~~~~~~~a~~-------~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  251 (389)
T 3vfd_A          179 ISAASLTSKYVGEGEKLVRALFAVARE-------LQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDD  251 (389)
T ss_dssp             ECSCCC-------CHHHHHHHHHHHHH-------SSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----
T ss_pred             eeHHHhhccccchHHHHHHHHHHHHHh-------cCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCC
Confidence            988765321      122333332222       23579999999988           344567788888743    45


Q ss_pred             CcEEEEeeCCCCCCChhhhcccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHH
Q 020071          141 STRFALACNVSSKIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL  213 (331)
Q Consensus       141 ~~~~I~~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l  213 (331)
                      ++++|.++|.+..+.+.+.+||. .+.|++|+.++...++...+...+..++++.+..|+..+.|..+..++.+
T Consensus       252 ~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          252 RVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHH
Confidence            68889999999999999999995 68999999999999999999988999999999999999999777655555

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.88  E-value=6.3e-22  Score=174.43  Aligned_cols=203  Identities=22%  Similarity=0.248  Sum_probs=154.3

Q ss_pred             CCCCCchhhhcCCCCCC--------ccccCHHHHHHHHHHHH---------------cCCCCeEEEeCCCCccHHHHHHH
Q 020071            9 SAYDIPWVEKYRPTKVC--------DIVGNLDAVARLGIIAR---------------DGNMPNLILAGPPGTGKTTSILA   65 (331)
Q Consensus         9 ~~~~~~~~~~~~p~~~~--------~~ig~~~~~~~l~~~l~---------------~~~~~~~ll~G~~G~GKt~la~~   65 (331)
                      .+...++.+.|++..++        +++|++.+++.+...+.               .....+++|+||||+|||++|++
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~l~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~   86 (309)
T 3syl_A            7 APTSIDLRAEYEGSGAKEVLEELDRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALK   86 (309)
T ss_dssp             SCSCCCHHHHHHHTTHHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHH
T ss_pred             CCCCCCCChhhccccHHHHHHHHHHHccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHH
Confidence            34455677777776642        68999999998887765               22333599999999999999999


Q ss_pred             HHHHhcCCCC--CCceEEeecCCCCC--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC---------CHHHHHHHH
Q 020071           66 LAHELLGPNY--REAVMELNASDDRG--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM---------TAGAQQALR  132 (331)
Q Consensus        66 l~~~l~~~~~--~~~~~~~~~~~~~~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l---------~~~~~~~Ll  132 (331)
                      +++.+.+...  ..+++.+++.+..+  .......+.......      .+.+++|||+|.+         +...++.|+
T Consensus        87 la~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~------~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll  160 (309)
T 3syl_A           87 MAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA------MGGVLFIDEAYYLYRPDNERDYGQEAIEILL  160 (309)
T ss_dssp             HHHHHHHTTSSSSCCEEEECGGGTCCSSTTCHHHHHHHHHHHH------TTSEEEEETGGGSCCCC---CCTHHHHHHHH
T ss_pred             HHHHHHhcCCcCCCcEEEEcHHHhhhhcccccHHHHHHHHHhc------CCCEEEEEChhhhccCCCcccccHHHHHHHH
Confidence            9998855432  33677777654421  111111112211111      2469999999977         788899999


Q ss_pred             HHHHHhcCCcEEEEeeCCCC-----CCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc----
Q 020071          133 RTMEIYSNSTRFALACNVSS-----KIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTA----  202 (331)
Q Consensus       133 ~~le~~~~~~~~I~~~~~~~-----~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~----  202 (331)
                      +.+++.+.++++|++++...     .+.+++++|| ..+.|++|+.+++..++...+.+.+..+++++++.++.+.    
T Consensus       161 ~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~~~  240 (309)
T 3syl_A          161 QVMENNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRR  240 (309)
T ss_dssp             HHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHT
T ss_pred             HHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhc
Confidence            99999888899999987532     3458999999 8899999999999999999999999999999999999863    


Q ss_pred             ----CCCHHHHHHHHHHHh
Q 020071          203 ----DGDMRQALNNLQATY  217 (331)
Q Consensus       203 ----~g~~r~~~~~l~~~~  217 (331)
                          .||+|.+.+.++.+.
T Consensus       241 ~~~~~gn~r~l~~~l~~a~  259 (309)
T 3syl_A          241 NQPHFANARSIRNALDRAR  259 (309)
T ss_dssp             TSSSCCHHHHHHHHHHHHH
T ss_pred             cCCCCCcHHHHHHHHHHHH
Confidence                489999999998764

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.88  E-value=6.6e-21  Score=166.97  Aligned_cols=190  Identities=21%  Similarity=0.190  Sum_probs=148.2

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHc------------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARD------------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .|.++++|..|++++|++.+++.+...+..            ....+++|+||+|+|||++|+++++.+     ..+++.
T Consensus        10 ~~~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~-----~~~~~~   84 (297)
T 3b9p_A           10 EIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC-----SATFLN   84 (297)
T ss_dssp             TTBCCSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT-----TCEEEE
T ss_pred             HhccCCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh-----CCCeEE
Confidence            477889999999999999999999888743            122349999999999999999999998     567888


Q ss_pred             eecCCCCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHHhc-----
Q 020071           82 LNASDDRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEIYS-----  139 (331)
Q Consensus        82 ~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~~~-----  139 (331)
                      +++.+..+      ...++..+....       ...+.+++|||+|.+.           ...++.|+..++..+     
T Consensus        85 i~~~~l~~~~~~~~~~~~~~~~~~~~-------~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  157 (297)
T 3b9p_A           85 ISAASLTSKYVGDGEKLVRALFAVAR-------HMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDG  157 (297)
T ss_dssp             EESTTTSSSSCSCHHHHHHHHHHHHH-------HTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-----
T ss_pred             eeHHHHhhcccchHHHHHHHHHHHHH-------HcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCC
Confidence            88765422      122333333222       2346899999998873           345678888888765     


Q ss_pred             CCcEEEEeeCCCCCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHH-HHHHH
Q 020071          140 NSTRFALACNVSSKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQAL-NNLQA  215 (331)
Q Consensus       140 ~~~~~I~~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~-~~l~~  215 (331)
                      ..+.+|++||.+..+.+++.+|| ..+.+++|+.++...++...+.+.+..++++.++.+++.+.|..+..+ ++++.
T Consensus       158 ~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~~l~~~  235 (297)
T 3b9p_A          158 DRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKD  235 (297)
T ss_dssp             -CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             CcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            35778888999999999999998 567899999999999999999888888999999999999999776555 44443

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=99.87  E-value=4.8e-21  Score=169.67  Aligned_cols=196  Identities=17%  Similarity=0.154  Sum_probs=149.5

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHH----------cC-CC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceE
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIAR----------DG-NM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVM   80 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~----------~~-~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~   80 (331)
                      ..|..++.+..|++++|++.+++.+...+.          .+ .. .++|||||||+|||++|+++++.+     +.+++
T Consensus         6 ~~~~~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~-----~~~~~   80 (322)
T 3eie_A            6 TAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-----NSTFF   80 (322)
T ss_dssp             CCSEEECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH-----TCEEE
T ss_pred             cceeecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH-----CCCEE
Confidence            357888999999999999999999998872          22 22 249999999999999999999998     67788


Q ss_pred             EeecCCCC--ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHH---hcCCcEE
Q 020071           81 ELNASDDR--GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEI---YSNSTRF  144 (331)
Q Consensus        81 ~~~~~~~~--~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~---~~~~~~~  144 (331)
                      .+++.+..  ........+........   ...+.+|+|||+|.+..           ..++.|+..++.   ...++++
T Consensus        81 ~v~~~~l~~~~~g~~~~~~~~~f~~a~---~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~v  157 (322)
T 3eie_A           81 SVSSSDLVSKWMGESEKLVKQLFAMAR---ENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLV  157 (322)
T ss_dssp             EEEHHHHHTTTGGGHHHHHHHHHHHHH---HTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEE
T ss_pred             EEchHHHhhcccchHHHHHHHHHHHHH---hcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEE
Confidence            88765421  11122222222222211   23467999999998853           346788888874   3456788


Q ss_pred             EEeeCCCCCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH
Q 020071          145 ALACNVSSKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT  216 (331)
Q Consensus       145 I~~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~  216 (331)
                      |.+||.+..+.+++++|| ..+.+++|+.++..++++..+...+..+++..++.|++.+.| +.+.+.++++.+
T Consensus       158 i~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~~a  231 (322)
T 3eie_A          158 LGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDA  231 (322)
T ss_dssp             EEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHHHH
T ss_pred             EEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            889999999999999998 567999999999999999999888888899999999999987 565666665543

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.87  E-value=6.6e-21  Score=172.74  Aligned_cols=275  Identities=17%  Similarity=0.150  Sum_probs=178.6

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHc---CC-CCeEEEeCCCCccHHHHHHHHHHHhcCCCC-CCceEEeecCCC
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARD---GN-MPNLILAGPPGTGKTTSILALAHELLGPNY-REAVMELNASDD   87 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~---~~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-~~~~~~~~~~~~   87 (331)
                      .+|..+|.|   ++++|++..++.+..++..   +. ..+++|+||+|+|||++++.+++.+.+... +..++.+++...
T Consensus        11 ~~l~~~~~p---~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~   87 (386)
T 2qby_A           11 EYLLPDYIP---DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQI   87 (386)
T ss_dssp             GGGSSSCCC---SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHH
T ss_pred             hhCCCccCC---CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCC
Confidence            356667777   6789999999999988874   33 334899999999999999999998743321 344566654311


Q ss_pred             C----------------------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC----HHHHHHHHHHHHH-hcC
Q 020071           88 R----------------------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT----AGAQQALRRTMEI-YSN  140 (331)
Q Consensus        88 ~----------------------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~----~~~~~~Ll~~le~-~~~  140 (331)
                      .                      ......+.+......     .+.+.+++|||++.+.    .+....|++.++. ...
T Consensus        88 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~-----~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~  162 (386)
T 2qby_A           88 DTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRD-----YGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKS  162 (386)
T ss_dssp             CSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHT-----CCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC-
T ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhc-----cCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCC
Confidence            1                      112222222222221     2347899999999885    3455666666654 345


Q ss_pred             CcEEEEeeCCC---CCCChhhhccc--ceeeecCCCHHHHHHHHHHHHHhc--CCCCCHHHHHHHHHhcC---CCHHHHH
Q 020071          141 STRFALACNVS---SKIIEPIQSRC--AIVRFSRLSDEEILSRLMVVVQEE--KVPYVPEGLEAIIFTAD---GDMRQAL  210 (331)
Q Consensus       141 ~~~~I~~~~~~---~~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~~--~~~i~~~~~~~l~~~~~---g~~r~~~  210 (331)
                      ++.+|++++..   ..+.+.+.+|+  ..+.|+|++.+++.+++..++...  ...+++++++.+++.++   ||+|.++
T Consensus       163 ~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~  242 (386)
T 2qby_A          163 KISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRAL  242 (386)
T ss_dssp             -EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             eEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHH
Confidence            67888888876   46778899998  689999999999999999887642  35789999999999988   9999999


Q ss_pred             HHHHHHh-----hCCCccchhhhhhhcCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHH---HcCCC---HHHHHHHHHHH
Q 020071          211 NNLQATY-----SGFRFVNQENVFKVCDQPHPLHVKNMVRNVLEGKFDDACSGLKQLY---DLGYS---PTDIITTLFRI  279 (331)
Q Consensus       211 ~~l~~~~-----~~~~~i~~~~v~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~---~~g~~---~~~i~~~l~~~  279 (331)
                      +.++.+.     .+...|+.+++..++.....+   .+...+...... ...++..+.   ..|.+   ..+++..+..+
T Consensus       243 ~ll~~a~~~a~~~~~~~i~~~~v~~a~~~~~~~---~~~~~~~~l~~~-~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~  318 (386)
T 2qby_A          243 DLLRVSGEIAERMKDTKVKEEYVYMAKEEIERD---RVRDIILTLPFH-SKLVLMAVVSISSEENVVSTTGAVYETYLNI  318 (386)
T ss_dssp             HHHHHHHHHHHHTTCSSCCHHHHHHHHHHHHHH---HHHHHHHTSCHH-HHHHHHHHHHHC-----CEEHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCccCHHHHHHHHHHHhhc---hHHHHHHcCCHH-HHHHHHHHHHHHhcCCCceeHHHHHHHHHHH
Confidence            9887653     245579999888765442222   222233222222 223333332   23433   36666766777


Q ss_pred             HHhcccC---hHhHHHHHHHHHH
Q 020071          280 IKNYEMA---EHLKLEFMKEAGF  299 (331)
Q Consensus       280 ~~~~~~~---~~~~~~~~~~l~~  299 (331)
                      +..++.+   ......+++.+.+
T Consensus       319 ~~~~g~~~~~~~~~~~~l~~L~~  341 (386)
T 2qby_A          319 CKKLGVEAVTQRRVSDIINELDM  341 (386)
T ss_dssp             HHHHTCCCCCHHHHHHHHHHHHH
T ss_pred             HHhcCCCCCCHHHHHHHHHHHHh
Confidence            7766533   3555566665544

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=99.86  E-value=5e-21  Score=171.53  Aligned_cols=191  Identities=18%  Similarity=0.166  Sum_probs=141.9

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .|..++.+.+|++++|++.+++.|...+..           ...+ ++|||||+|+|||++|+++++.+     +.+++.
T Consensus        40 ~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~-----~~~~~~  114 (355)
T 2qp9_X           40 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA-----NSTFFS  114 (355)
T ss_dssp             -------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH-----TCEEEE
T ss_pred             hhcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh-----CCCEEE
Confidence            466788899999999999999999888731           1222 39999999999999999999998     667777


Q ss_pred             eecCCCC------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHH---hcCC
Q 020071           82 LNASDDR------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEI---YSNS  141 (331)
Q Consensus        82 ~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~---~~~~  141 (331)
                      +++.+..      ....++..+....       ...+.||||||+|.+..           ...+.|+..++.   .+.+
T Consensus       115 v~~~~l~~~~~g~~~~~~~~~f~~a~-------~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~  187 (355)
T 2qp9_X          115 VSSSDLVSKWMGESEKLVKQLFAMAR-------ENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG  187 (355)
T ss_dssp             EEHHHHHSCC---CHHHHHHHHHHHH-------HTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CC
T ss_pred             eeHHHHhhhhcchHHHHHHHHHHHHH-------HcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCC
Confidence            7764321      1122333333222       23468999999999863           346788888874   3467


Q ss_pred             cEEEEeeCCCCCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH
Q 020071          142 TRFALACNVSSKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT  216 (331)
Q Consensus       142 ~~~I~~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~  216 (331)
                      +++|++||.+..+.+++++|| ..+.+++|+.++...+++..+...+..+++..++.|++.+.| +.+.+.++++.+
T Consensus       188 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~~A  264 (355)
T 2qp9_X          188 VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDA  264 (355)
T ss_dssp             EEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             eEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            888889999999999999999 668999999999999999998888777899999999999988 565666665543

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=99.86  E-value=3.6e-21  Score=177.05  Aligned_cols=212  Identities=16%  Similarity=0.190  Sum_probs=158.3

Q ss_pred             hcCCC-CCCccc-c--CHHHHHHHHHHHHcCC-CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHh
Q 020071           18 KYRPT-KVCDIV-G--NLDAVARLGIIARDGN-MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDV   92 (331)
Q Consensus        18 ~~~p~-~~~~~i-g--~~~~~~~l~~~l~~~~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (331)
                      ..+|. +|++++ |  +..+...+........ .++++||||+|+|||++++++++.+.+...+..++.+++...  ...
T Consensus        97 ~l~~~~tfd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~--~~~  174 (440)
T 2z4s_A           97 PLNPDYTFENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF--LND  174 (440)
T ss_dssp             CCCTTCSGGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHH--HHH
T ss_pred             CCCCCCChhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHH--HHH
Confidence            34555 899988 5  4555666777766643 445999999999999999999998865444556777765432  111


Q ss_pred             HHHHHH-----HHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHHHHhc-CCcEEEEeeCCC-C---CCChhhhc
Q 020071           93 VRNKIK-----MFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTMEIYS-NSTRFALACNVS-S---KIIEPIQS  160 (331)
Q Consensus        93 i~~~i~-----~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~le~~~-~~~~~I~~~~~~-~---~l~~~l~s  160 (331)
                      +...+.     .+.. ..   ..+..+++|||++.+..  ..++.|+.+++... .+..+|++++.+ .   .+.+.+.+
T Consensus       175 ~~~~~~~~~~~~~~~-~~---~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~s  250 (440)
T 2z4s_A          175 LVDSMKEGKLNEFRE-KY---RKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVS  250 (440)
T ss_dssp             HHHHHHTTCHHHHHH-HH---TTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHH
T ss_pred             HHHHHHcccHHHHHH-Hh---cCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHh
Confidence            111111     1111 00   11467999999999976  67889999988643 456677777764 2   37899999


Q ss_pred             cc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh----hCCCccchhhhhhhcC
Q 020071          161 RC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY----SGFRFVNQENVFKVCD  233 (331)
Q Consensus       161 r~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~----~~~~~i~~~~v~~~~~  233 (331)
                      ||   .++.+.||+.++...++...+...++.++++++++|+..++||+|.+.+.++.+.    ..+..||.+++.+++.
T Consensus       251 R~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~l~  330 (440)
T 2z4s_A          251 RFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILLLK  330 (440)
T ss_dssp             HHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHTS
T ss_pred             hccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence            98   6899999999999999999999899999999999999999999999999998663    2345799999988776


Q ss_pred             CC
Q 020071          234 QP  235 (331)
Q Consensus       234 ~~  235 (331)
                      ..
T Consensus       331 ~~  332 (440)
T 2z4s_A          331 DF  332 (440)
T ss_dssp             TT
T ss_pred             HH
Confidence            54

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=99.85  E-value=8.9e-21  Score=166.98  Aligned_cols=203  Identities=19%  Similarity=0.246  Sum_probs=146.5

Q ss_pred             CccccCHHHHHHHHHHHHc--------------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC-
Q 020071           25 CDIVGNLDAVARLGIIARD--------------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG-   89 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~--------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~-   89 (331)
                      ++++|++.++..+...+..              ....+++|+||+|+|||++|+.+++.+     +.+++.+++..... 
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l-----~~~~~~i~~~~~~~~   89 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA-----NAPFIKVEATKFTEV   89 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH-----TCCEEEEEGGGGSSC
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEEcchhcccC
Confidence            3589999999999888765              223459999999999999999999998     55677777654321 


Q ss_pred             -------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHH------------HHHHHHHHHHh----------cC
Q 020071           90 -------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA------------QQALRRTMEIY----------SN  140 (331)
Q Consensus        90 -------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~------------~~~Ll~~le~~----------~~  140 (331)
                             ...+.+....... ... ....+.+++|||+|.++...            ++.|++++++.          +.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~  167 (310)
T 1ofh_A           90 GYVGKEVDSIIRDLTDSAGG-AID-AVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTD  167 (310)
T ss_dssp             CSGGGSTTHHHHHHHHTTTT-CHH-HHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECT
T ss_pred             CccCccHHHHHHHHHHHhhH-HHh-hccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEecccccccCC
Confidence                   1123333221100 000 00136799999999997654            88999999963          34


Q ss_pred             CcEEEEee----CCCCCCChhhhcccc-eeeecCCCHHHHHHHHHH-----------HHHhcC--CCCCHHHHHHHHHhc
Q 020071          141 STRFALAC----NVSSKIIEPIQSRCA-IVRFSRLSDEEILSRLMV-----------VVQEEK--VPYVPEGLEAIIFTA  202 (331)
Q Consensus       141 ~~~~I~~~----~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~-----------~~~~~~--~~i~~~~~~~l~~~~  202 (331)
                      ++.+|+++    +.+..+.+++.+||. .+.|+||+.+++..+++.           .+...+  +.+++++++.|++.+
T Consensus       168 ~~~~i~~~~~~~~~~~~l~~~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~  247 (310)
T 1ofh_A          168 HILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAA  247 (310)
T ss_dssp             TCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHH
T ss_pred             cEEEEEcCCcccCCcccCCHHHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHHHh
Confidence            67777774    355678899999996 589999999999999883           233344  368999999999988


Q ss_pred             --------CCCHHHHHHHHHHHh--------hCCC---ccchhhhhhhcCC
Q 020071          203 --------DGDMRQALNNLQATY--------SGFR---FVNQENVFKVCDQ  234 (331)
Q Consensus       203 --------~g~~r~~~~~l~~~~--------~~~~---~i~~~~v~~~~~~  234 (331)
                              +||+|.+.+.++.+.        ...+   .|+.+++.+++..
T Consensus       248 ~~~~~~~~~g~~R~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~v~~~l~~  298 (310)
T 1ofh_A          248 FRVNEKTENIGARRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALGE  298 (310)
T ss_dssp             HHHHHHSCCCTTHHHHHHHHHHSHHHHHHGGGCTTCEEEECHHHHHHHTCS
T ss_pred             hhhcccccccCcHHHHHHHHHHHHhhhcCCccccCCEEEEeeHHHHHHHHh
Confidence                    799999999998753        1111   3888888776654

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=99.85  E-value=2.4e-20  Score=167.34  Aligned_cols=194  Identities=18%  Similarity=0.155  Sum_probs=146.9

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHc------------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARD------------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      +.++++|..|++++|++.+++.+...+..            ....++||+||+|+|||++|+++++.+     +.+++.+
T Consensus        74 i~~~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~-----~~~~~~i  148 (357)
T 3d8b_A           74 IMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS-----GATFFSI  148 (357)
T ss_dssp             TBCCSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT-----TCEEEEE
T ss_pred             cccCCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc-----CCeEEEE
Confidence            45678899999999999999999888753            223349999999999999999999998     6678888


Q ss_pred             ecCCCCCh--HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHH----hcCCcEEE
Q 020071           83 NASDDRGI--DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEI----YSNSTRFA  145 (331)
Q Consensus        83 ~~~~~~~~--~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~----~~~~~~~I  145 (331)
                      ++.+..+.  ......+........   ...+.+|||||+|.+.           ...++.|+..++.    ++.++++|
T Consensus       149 ~~~~l~~~~~g~~~~~~~~~~~~a~---~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI  225 (357)
T 3d8b_A          149 SASSLTSKWVGEGEKMVRALFAVAR---CQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVV  225 (357)
T ss_dssp             EGGGGCCSSTTHHHHHHHHHHHHHH---HTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEE
T ss_pred             ehHHhhccccchHHHHHHHHHHHHH---hcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEE
Confidence            87654221  111222222211111   2346899999998773           2346677777773    34577888


Q ss_pred             EeeCCCCCCChhhhcccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH
Q 020071          146 LACNVSSKIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT  216 (331)
Q Consensus       146 ~~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~  216 (331)
                      ++||.+..+.+++++||. .+.+++|+.++..+++...+...+..++++.++.+++.+.| +.+.+..+++.+
T Consensus       226 ~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~~~a  298 (357)
T 3d8b_A          226 GATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREA  298 (357)
T ss_dssp             EEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             EecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            899999999999999996 67999999999999999999888888999999999999988 555555555543

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.85  E-value=5.2e-20  Score=157.83  Aligned_cols=204  Identities=20%  Similarity=0.195  Sum_probs=149.0

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      +|.+++++..|++++|++.+++.+...+..           ...+ +++|+||+|+|||++|+++++.+     +.+++.
T Consensus         1 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~-----~~~~~~   75 (257)
T 1lv7_A            1 MLTEDQIKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFT   75 (257)
T ss_dssp             CEEECSSCCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH-----TCCEEE
T ss_pred             CCCccCCCCCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc-----CCCEEE
Confidence            489999999999999999999988766542           1223 49999999999999999999988     556788


Q ss_pred             eecCCCC------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHH--hc
Q 020071           82 LNASDDR------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEI--YS  139 (331)
Q Consensus        82 ~~~~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~--~~  139 (331)
                      +++.+..      +...++..+....       ...+.+++|||+|.+..              ...+.++..++.  .+
T Consensus        76 i~~~~~~~~~~~~~~~~~~~~~~~a~-------~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  148 (257)
T 1lv7_A           76 ISGSDFVEMFVGVGASRVRDMFEQAK-------KAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (257)
T ss_dssp             ECSCSSTTSCCCCCHHHHHHHHHHHH-------TTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             EeHHHHHHHhhhhhHHHHHHHHHHHH-------HcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccC
Confidence            8776542      1223444444332       22357999999976532              345566666764  34


Q ss_pred             CCcEEEEeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCH-HHHHHHHHhcCC-CHHHHHHHHH
Q 020071          140 NSTRFALACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVP-EGLEAIIFTADG-DMRQALNNLQ  214 (331)
Q Consensus       140 ~~~~~I~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~-~~~~~l~~~~~g-~~r~~~~~l~  214 (331)
                      .++++|+++|.+..+.+.+.+  |+ ..+.+++|+.++..++++..+++.+  +++ .....++..+.| +.|.+.+.++
T Consensus       149 ~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~--l~~~~~~~~la~~~~G~~~~dl~~l~~  226 (257)
T 1lv7_A          149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVP--LAPDIDAAIIARGTPGFSGADLANLVN  226 (257)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC--BCTTCCHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCC--CCccccHHHHHHHcCCCCHHHHHHHHH
Confidence            567888899999999999987  65 4578999999999999988776543  333 336778888999 9999998887


Q ss_pred             HHh-----hCCCccchhhhhhh
Q 020071          215 ATY-----SGFRFVNQENVFKV  231 (331)
Q Consensus       215 ~~~-----~~~~~i~~~~v~~~  231 (331)
                      .+.     .+...|+.+++.++
T Consensus       227 ~a~~~a~~~~~~~i~~~~~~~a  248 (257)
T 1lv7_A          227 EAALFAARGNKRVVSMVEFEKA  248 (257)
T ss_dssp             HHHHHHHHTTCSSBCHHHHHHH
T ss_pred             HHHHHHHHhCCCcccHHHHHHH
Confidence            653     23456777777653

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.85  E-value=6.4e-20  Score=163.15  Aligned_cols=208  Identities=20%  Similarity=0.169  Sum_probs=153.0

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHh
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDV   92 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (331)
                      .+|.++++|..+++++|+++++..+...+..+.  +++|+||||+|||++|+++++.+     +.++..+++........
T Consensus        15 ~~~~~~~~~~~~~~i~g~~~~~~~l~~~l~~~~--~vll~G~pGtGKT~la~~la~~~-----~~~~~~i~~~~~~~~~~   87 (331)
T 2r44_A           15 RNKIKEVIDEVGKVVVGQKYMINRLLIGICTGG--HILLEGVPGLAKTLSVNTLAKTM-----DLDFHRIQFTPDLLPSD   87 (331)
T ss_dssp             HHHHHHHHHHHTTTCCSCHHHHHHHHHHHHHTC--CEEEESCCCHHHHHHHHHHHHHT-----TCCEEEEECCTTCCHHH
T ss_pred             HHHHHHHHHHhccceeCcHHHHHHHHHHHHcCC--eEEEECCCCCcHHHHHHHHHHHh-----CCCeEEEecCCCCChhh
Confidence            379999999999999999999999988888764  69999999999999999999988     44566666543222111


Q ss_pred             HHHHHHHHH----hcccCCCCC--CceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCCC---
Q 020071           93 VRNKIKMFA----QKKVTLPPG--KHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVSS---  152 (331)
Q Consensus        93 i~~~i~~~~----~~~~~~~~~--~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~~---  152 (331)
                         .+....    ...+....+  ...+++|||++.++...++.|++.+++.           +..+.+|.++|...   
T Consensus        88 ---l~g~~~~~~~~~~~~~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~  164 (331)
T 2r44_A           88 ---LIGTMIYNQHKGNFEVKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEG  164 (331)
T ss_dssp             ---HHEEEEEETTTTEEEEEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSC
T ss_pred             ---cCCceeecCCCCceEeccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccC
Confidence               110000    000000001  1369999999999999999999999963           44566676666432   


Q ss_pred             --CCChhhhcccce-eeecCCCHHHHHHHHHHHHHhc----------------------CCCCCHHHHHHHHHhc-----
Q 020071          153 --KIIEPIQSRCAI-VRFSRLSDEEILSRLMVVVQEE----------------------KVPYVPEGLEAIIFTA-----  202 (331)
Q Consensus       153 --~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~~~----------------------~~~i~~~~~~~l~~~~-----  202 (331)
                        .+.+++.+||.. +.+.+|+.++..++++..+...                      ++.+++++++++++.+     
T Consensus       165 ~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~i~~~~~~~r~  244 (331)
T 2r44_A          165 TYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSNMNFNYQVQKIVSKNDVLEIRNEINKVTISESLEKYIIELVFATRF  244 (331)
T ss_dssp             CCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHCTTCCCCCCCCSCHHHHHHHHHHHHTCBCCHHHHHHHHHHHHHHHS
T ss_pred             cccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccccCcchhccccCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhc
Confidence              388999999985 8999999999999998876542                      6778999999888654     


Q ss_pred             ---------------CCCHHHHHHHHHHHh-----hCCCccchhhhhh
Q 020071          203 ---------------DGDMRQALNNLQATY-----SGFRFVNQENVFK  230 (331)
Q Consensus       203 ---------------~g~~r~~~~~l~~~~-----~~~~~i~~~~v~~  230 (331)
                                     +.++|.+.+.++.+.     .+...|+.+++.+
T Consensus       245 ~~~~~~~~~~~~~~~~~s~R~~~~ll~~a~a~A~l~g~~~v~~~dv~~  292 (331)
T 2r44_A          245 PAEYGLEAEASYILYGASTRAAINLNRVAKAMAFFNNRDYVLPEDIKE  292 (331)
T ss_dssp             GGGGTCHHHHHHEEECCCHHHHHHHHHHHHHHHHHTTCSBCCHHHHHH
T ss_pred             cccccccccccccccCcChhHHHHHHHHHHHHHHHcCCCCCCHHHHHH
Confidence                           226999888886542     3455677776655

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=99.85  E-value=2.6e-19  Score=153.83  Aligned_cols=198  Identities=17%  Similarity=0.095  Sum_probs=136.0

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc------------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD------------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      +.+|++++|++.+++.+.+.+..            ....+++|+||+|+|||++|+++++.+     +.+++.+++.+..
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~-----~~~~~~~~~~~~~   76 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA-----QVPFLAMAGAEFV   76 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCCEEEEETTTTS
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEechHHHH
Confidence            45899999999999988777542            122348999999999999999999998     6678888876542


Q ss_pred             C------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC------------HHHHHHHHHHHH---H--hcCCcEEE
Q 020071           89 G------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT------------AGAQQALRRTME---I--YSNSTRFA  145 (331)
Q Consensus        89 ~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~------------~~~~~~Ll~~le---~--~~~~~~~I  145 (331)
                      .      ...+...+..+..       ..+.+++|||+|.+.            ...+..+..+++   .  .+.++++|
T Consensus        77 ~~~~~~~~~~~~~~~~~a~~-------~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi  149 (262)
T 2qz4_A           77 EVIGGLGAARVRSLFKEARA-------RAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVL  149 (262)
T ss_dssp             SSSTTHHHHHHHHHHHHHHH-------TCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEE
T ss_pred             hhccChhHHHHHHHHHHHHh-------cCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEE
Confidence            2      1223333333221       236799999999983            223344444444   3  34567888


Q ss_pred             EeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHH-HHHHHHhcCCC-HHHHHHHHHHHh---
Q 020071          146 LACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEG-LEAIIFTADGD-MRQALNNLQATY---  217 (331)
Q Consensus       146 ~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~-~~~l~~~~~g~-~r~~~~~l~~~~---  217 (331)
                      +++|.+..+.+++.+  |+ ..+.+++|+.++..++++..+...+...+.+. ...++..+.|. .+.+.+.++.++   
T Consensus       150 ~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a~~~a  229 (262)
T 2qz4_A          150 ASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHA  229 (262)
T ss_dssp             EEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHHHHTC-
T ss_pred             ecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHHHHHHH
Confidence            889988888899988  88 57899999999999999999988888777664 57888888774 556666666543   


Q ss_pred             --hCCCccchhhhhh
Q 020071          218 --SGFRFVNQENVFK  230 (331)
Q Consensus       218 --~~~~~i~~~~v~~  230 (331)
                        .+...|+.+++.+
T Consensus       230 ~~~~~~~i~~~d~~~  244 (262)
T 2qz4_A          230 AREGHTSVHTLNFEY  244 (262)
T ss_dssp             -------CCBCCHHH
T ss_pred             HHcCCCCCCHHHHHH
Confidence              2234566666554

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.85  E-value=3.9e-19  Score=157.08  Aligned_cols=188  Identities=17%  Similarity=0.158  Sum_probs=143.2

Q ss_pred             hcCCCCCCccccCHHHHHHHHHHHHc----------C-CC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           18 KYRPTKVCDIVGNLDAVARLGIIARD----------G-NM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        18 ~~~p~~~~~~ig~~~~~~~l~~~l~~----------~-~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .+.+.+|+|++|++.+++.|...+..          + .. .++|||||||+|||++|+++++.+.    ..+++.++++
T Consensus         5 ~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~----~~~~~~i~~~   80 (322)
T 1xwi_A            5 ERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN----NSTFFSISSS   80 (322)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT----SCEEEEEECC
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC----CCcEEEEEhH
Confidence            45567999999999999999888742          1 22 2499999999999999999999873    3467777766


Q ss_pred             CCCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHH---hcCCcEEE
Q 020071           86 DDRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEI---YSNSTRFA  145 (331)
Q Consensus        86 ~~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~---~~~~~~~I  145 (331)
                      +..+      ...++..+.....       ..+.+|||||+|.+.           ....+.|+..++.   ++.++.+|
T Consensus        81 ~l~~~~~g~~~~~~~~lf~~a~~-------~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI  153 (322)
T 1xwi_A           81 DLVSKWLGESEKLVKNLFQLARE-------NKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVL  153 (322)
T ss_dssp             SSCCSSCCSCHHHHHHHHHHHHH-------TSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEE
T ss_pred             HHHhhhhhHHHHHHHHHHHHHHh-------cCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEE
Confidence            5421      2234444433322       346799999999882           2345677777775   34678888


Q ss_pred             EeeCCCCCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCC-HHHHHHHHHHH
Q 020071          146 LACNVSSKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGD-MRQALNNLQAT  216 (331)
Q Consensus       146 ~~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~-~r~~~~~l~~~  216 (331)
                      .+||.+..+.+++++|+ ..+.+++|+.++...+++..+...+..+++..++.|++.+.|- .+.+.++++.+
T Consensus       154 ~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~A  226 (322)
T 1xwi_A          154 GATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDA  226 (322)
T ss_dssp             EEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             EecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            89999999999999999 5689999999999999999988877778999999999999874 55555555443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.84  E-value=2.2e-19  Score=160.24  Aligned_cols=198  Identities=18%  Similarity=0.181  Sum_probs=141.7

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHc-----------CC-CCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARD-----------GN-MPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~-----------~~-~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      ...+|+|+.|.+++++.|+..+.-           |. .|. +|||||||||||++|+++|.++     +.+++.+++++
T Consensus       143 p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~-----~~~f~~v~~s~  217 (405)
T 4b4t_J          143 PDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT-----DCKFIRVSGAE  217 (405)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH-----TCEEEEEEGGG
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh-----CCCceEEEhHH
Confidence            345899999999999999877642           32 233 9999999999999999999999     78899888765


Q ss_pred             CCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHH--hcCCcEE
Q 020071           87 DRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEI--YSNSTRF  144 (331)
Q Consensus        87 ~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~--~~~~~~~  144 (331)
                      ..+      ...+++.+..+...       .+.+|||||+|.+..              ...+.|+..|+.  ...++.+
T Consensus       218 l~sk~vGese~~vr~lF~~Ar~~-------aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~v  290 (405)
T 4b4t_J          218 LVQKYIGEGSRMVRELFVMAREH-------APSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKI  290 (405)
T ss_dssp             GSCSSTTHHHHHHHHHHHHHHHT-------CSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEE
T ss_pred             hhccccchHHHHHHHHHHHHHHh-------CCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEE
Confidence            422      23455555444432       367999999998842              124566666763  3456788


Q ss_pred             EEeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH---h
Q 020071          145 ALACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT---Y  217 (331)
Q Consensus       145 I~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~---~  217 (331)
                      |.+||.++.+.+++++  |+ ..+.|++|+.++..++++..+++.++. ++-.++.|++.+.| +...+.+.+..+   +
T Consensus       291 IaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~-~dvdl~~lA~~t~G~SGADi~~l~~eA~~~A  369 (405)
T 4b4t_J          291 IMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLT-RGINLRKVAEKMNGCSGADVKGVCTEAGMYA  369 (405)
T ss_dssp             EEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCC-SSCCHHHHHHHCCSCCHHHHHHHHHHHHHHH
T ss_pred             EeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCC-ccCCHHHHHHHCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999987  76 468999999999999998877655432 22247888988866 444444444332   1


Q ss_pred             --hCCCccchhhhhh
Q 020071          218 --SGFRFVNQENVFK  230 (331)
Q Consensus       218 --~~~~~i~~~~v~~  230 (331)
                        .+...|+.+++..
T Consensus       370 ir~~~~~vt~~Df~~  384 (405)
T 4b4t_J          370 LRERRIHVTQEDFEL  384 (405)
T ss_dssp             HHTTCSBCCHHHHHH
T ss_pred             HHcCCCCcCHHHHHH
Confidence              3445567666544

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=99.84  E-value=1.1e-19  Score=167.43  Aligned_cols=192  Identities=17%  Similarity=0.163  Sum_probs=144.9

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHc-----------CCC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARD-----------GNM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      -+...+.+..|++++|++.+++.|...+..           ... .++|||||||+|||++|+++++.+.    ..+++.
T Consensus       123 ~i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~----~~~~~~  198 (444)
T 2zan_A          123 AIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN----NSTFFS  198 (444)
T ss_dssp             -CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC----SSEEEE
T ss_pred             ceeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC----CCCEEE
Confidence            345567888999999999999999988731           122 3499999999999999999999873    346777


Q ss_pred             eecCCCCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHH---hcCC
Q 020071           82 LNASDDRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEI---YSNS  141 (331)
Q Consensus        82 ~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~---~~~~  141 (331)
                      +++++..+      ...++..+..+..       ..+.||||||+|.+.           ....+.|+..++.   ++.+
T Consensus       199 v~~~~l~~~~~g~~~~~~~~~f~~a~~-------~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~  271 (444)
T 2zan_A          199 ISSSDLVSKWLGESEKLVKNLFQLARE-------NKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  271 (444)
T ss_dssp             ECCC---------CCCTHHHHHHHHHH-------SCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSS
T ss_pred             EeHHHHHhhhcchHHHHHHHHHHHHHH-------cCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCC
Confidence            77665421      1233444433322       246799999999883           2456777777765   3567


Q ss_pred             cEEEEeeCCCCCCChhhhcccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH
Q 020071          142 TRFALACNVSSKIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT  216 (331)
Q Consensus       142 ~~~I~~~~~~~~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~  216 (331)
                      +.||++||.+..+.+++++||. .+.+++|+.++...+++..+...+..+++..++.|++.+.| +.+.+.++++.+
T Consensus       272 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~a  348 (444)
T 2zan_A          272 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDA  348 (444)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             EEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            8899999999999999999995 78999999999999999988877777899999999999988 555655555543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.84  E-value=8.9e-20  Score=158.78  Aligned_cols=204  Identities=18%  Similarity=0.165  Sum_probs=143.4

Q ss_pred             cCCCCCCccccCHHHHHHHHHHHHc-------------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           19 YRPTKVCDIVGNLDAVARLGIIARD-------------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        19 ~~p~~~~~~ig~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      ..+..|++++|++.+++.+...+..             ....+++|+||+|+|||++|+++++.+     +.+++.+++.
T Consensus        11 ~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~-----~~~~~~v~~~   85 (285)
T 3h4m_A           11 RPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET-----NATFIRVVGS   85 (285)
T ss_dssp             SCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT-----TCEEEEEEGG
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEehH
Confidence            3456899999999999999888754             233349999999999999999999998     6677777765


Q ss_pred             CCCC--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC-----------CHHHHHHHHHHHHH-----hcCCcEEEEe
Q 020071           86 DDRG--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM-----------TAGAQQALRRTMEI-----YSNSTRFALA  147 (331)
Q Consensus        86 ~~~~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l-----------~~~~~~~Ll~~le~-----~~~~~~~I~~  147 (331)
                      +..+  .......+........   ...+.+++|||+|.+           ....+..|..+++.     ...++++|++
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~t  162 (285)
T 3h4m_A           86 ELVKKFIGEGASLVKDIFKLAK---EKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGA  162 (285)
T ss_dssp             GGCCCSTTHHHHHHHHHHHHHH---HTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEE
T ss_pred             HHHHhccchHHHHHHHHHHHHH---HcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEe
Confidence            4321  1112222222211111   233579999999987           44556667666654     3357888999


Q ss_pred             eCCCCCCChhhhc--ccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH---h--h
Q 020071          148 CNVSSKIIEPIQS--RCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT---Y--S  218 (331)
Q Consensus       148 ~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~---~--~  218 (331)
                      +|.+..+.+.+.+  |+. .+.+++|+.++..++++..+...+.. ++..+..++..+.| +.+.+.+.++.+   +  .
T Consensus       163 tn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~a~~~  241 (285)
T 3h4m_A          163 TNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLA-EDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRE  241 (285)
T ss_dssp             CSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             CCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCC-CcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHh
Confidence            9999999999998  774 68999999999999999887765543 23346778888876 555655555443   2  3


Q ss_pred             CCCccchhhhhhh
Q 020071          219 GFRFVNQENVFKV  231 (331)
Q Consensus       219 ~~~~i~~~~v~~~  231 (331)
                      +...|+.+++.++
T Consensus       242 ~~~~I~~~d~~~a  254 (285)
T 3h4m_A          242 LRDYVTMDDFRKA  254 (285)
T ss_dssp             TCSSBCHHHHHHH
T ss_pred             ccCcCCHHHHHHH
Confidence            4556888877653

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=99.83  E-value=3.2e-20  Score=164.59  Aligned_cols=186  Identities=15%  Similarity=0.160  Sum_probs=139.8

Q ss_pred             CCCCccc---cCHHHHHHHHHHHHcCC--CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHH
Q 020071           22 TKVCDIV---GNLDAVARLGIIARDGN--MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNK   96 (331)
Q Consensus        22 ~~~~~~i---g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~   96 (331)
                      .+|++++   ++......+...+....  .++++||||+|+|||++++.+++.+...  +.+++.+++.+.  ...+...
T Consensus         8 ~~f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~~~~~~i~~~~~--~~~~~~~   83 (324)
T 1l8q_A            8 YTLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSADDF--AQAMVEH   83 (324)
T ss_dssp             CCSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEHHHH--HHHHHHH
T ss_pred             CCcccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--CCEEEEEEHHHH--HHHHHHH
Confidence            3788887   46666777888777653  3459999999999999999999988544  456677765432  1111111


Q ss_pred             HH-----HHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHHHHHHHh-cCCcEEEEeeCCC-C---CCChhhhccc--
Q 020071           97 IK-----MFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALRRTMEIY-SNSTRFALACNVS-S---KIIEPIQSRC--  162 (331)
Q Consensus        97 i~-----~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll~~le~~-~~~~~~I~~~~~~-~---~l~~~l~sr~--  162 (331)
                      +.     .+...     .....+++|||++.+..  ..++.++.+++.. ..+.++|++++.. .   .+.+.+.+|+  
T Consensus        84 ~~~~~~~~~~~~-----~~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~  158 (324)
T 1l8q_A           84 LKKGTINEFRNM-----YKSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEG  158 (324)
T ss_dssp             HHHTCHHHHHHH-----HHTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHT
T ss_pred             HHcCcHHHHHHH-----hcCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccC
Confidence            11     11110     12357999999999976  6788888888753 3445677776653 2   6889999998  


Q ss_pred             -ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhh
Q 020071          163 -AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYS  218 (331)
Q Consensus       163 -~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~  218 (331)
                       .++.|+| +.++...++...+...++.++++++++|++.+ ||+|.+.+.++.+..
T Consensus       159 ~~~i~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~-g~~r~l~~~l~~~~~  213 (324)
T 1l8q_A          159 GILVEIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLIKL  213 (324)
T ss_dssp             SEEEECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHHHH
T ss_pred             ceEEEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC-CCHHHHHHHHHHHHH
Confidence             7899999 99999999999999999999999999999999 999999999987653

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.82  E-value=2.4e-20  Score=172.96  Aligned_cols=195  Identities=16%  Similarity=0.238  Sum_probs=145.5

Q ss_pred             CCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEEeec
Q 020071           10 AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVMELNA   84 (331)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~   84 (331)
                      ....+|+++++|..|++++|++..+..+...+.....+|+||+||||+|||++|+.+++.+.+..     .+..++.+++
T Consensus       165 ~~~~~l~~~~r~~~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~  244 (468)
T 3pxg_A          165 SLARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM  244 (468)
T ss_dssp             SSCCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC--
T ss_pred             HHHHHHHHHHhcCCCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeC
Confidence            45668999999999999999999999999999988878899999999999999999999986532     2445666665


Q ss_pred             CCC-CC--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC-----CCCh
Q 020071           85 SDD-RG--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS-----KIIE  156 (331)
Q Consensus        85 ~~~-~~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~-----~l~~  156 (331)
                      ... .+  ...+...+..+..       .++.++|||    .+.+.++.|+..++.  ..+++|.++|...     .+.+
T Consensus       245 ~~~~~g~~e~~~~~~~~~~~~-------~~~~iLfiD----~~~~a~~~L~~~L~~--g~v~vI~at~~~e~~~~~~~~~  311 (468)
T 3pxg_A          245 GTKYRGEFEDRLKKVMDEIRQ-------AGNIILFID----AAIDASNILKPSLAR--GELQCIGATTLDEYRKYIEKDA  311 (468)
T ss_dssp             --------CTTHHHHHHHHHT-------CCCCEEEEC----C--------CCCTTS--SSCEEEEECCTTTTHHHHTTCS
T ss_pred             CccccchHHHHHHHHHHHHHh-------cCCeEEEEe----CchhHHHHHHHhhcC--CCEEEEecCCHHHHHHHhhcCH
Confidence            411 11  1234444444332       346799999    455678888888874  4688888888775     5889


Q ss_pred             hhhcccceeeecCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcCC------CHHHHHHHHHHHh
Q 020071          157 PIQSRCAIVRFSRLSDEEILSRLMVVVQE----EKVPYVPEGLEAIIFTADG------DMRQALNNLQATY  217 (331)
Q Consensus       157 ~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~~~~~l~~~~  217 (331)
                      ++.+||.++.|++|+.++...+++..+.+    .++.++++++..++.++.+      -++++++.++.+.
T Consensus       312 al~~Rf~~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~ll~~a~  382 (468)
T 3pxg_A          312 ALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEAG  382 (468)
T ss_dssp             HHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHHH
T ss_pred             HHHHhCccceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHHHHHHHH
Confidence            99999999999999999999999987765    6888999999999987642      3667888887653

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.82  E-value=8.4e-19  Score=152.98  Aligned_cols=198  Identities=8%  Similarity=0.109  Sum_probs=139.0

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHH----HHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEEeecC
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLG----IIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVMELNAS   85 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~----~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~   85 (331)
                      +.+.|.|..+  +.|++..+..+.    ..+..+..++++|+||||||||++++.+++.+....     ....++.+||.
T Consensus        12 l~~~~~~~~~--L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~   89 (318)
T 3te6_A           12 IRESLQKREL--LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDAL   89 (318)
T ss_dssp             HHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETT
T ss_pred             hhhccCCccc--cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEecc
Confidence            3444555332  677777777655    445567777799999999999999999999985321     13567889987


Q ss_pred             CCCChHhHH-H-----------------HHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh---cCCcEE
Q 020071           86 DDRGIDVVR-N-----------------KIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY---SNSTRF  144 (331)
Q Consensus        86 ~~~~~~~i~-~-----------------~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~---~~~~~~  144 (331)
                      .......+. .                 .+........ ...+...||++||+|.+.  .++.|..+++.+   ..++.+
T Consensus        90 ~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~-~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~v  166 (318)
T 3te6_A           90 ELAGMDALYEKIWFAISKENLCGDISLEALNFYITNVP-KAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKLSI  166 (318)
T ss_dssp             CCC--HHHHHHHHHHHSCCC--CCCCHHHHHHHHHHSC-GGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEE
T ss_pred             ccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHhh-hccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcEEE
Confidence            643322111 1                 1111111100 012346799999999998  677888887643   345678


Q ss_pred             EEeeCCCCC----CChhhhccc--ceeeecCCCHHHHHHHHHHHHHhcC-------------------------------
Q 020071          145 ALACNVSSK----IIEPIQSRC--AIVRFSRLSDEEILSRLMVVVQEEK-------------------------------  187 (331)
Q Consensus       145 I~~~~~~~~----l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~~~-------------------------------  187 (331)
                      |+++|..+.    +.+.++||+  ..+.|+|++.+++.++++++++...                               
T Consensus       167 I~i~n~~d~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (318)
T 3te6_A          167 ICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNV  246 (318)
T ss_dssp             EEECCSSCCCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CTTE
T ss_pred             EEEecCcccchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccc
Confidence            888887643    446678887  5799999999999999999987632                               


Q ss_pred             ----CCCCHHHHHHHHH---hcCCCHHHHHHHHHHHh
Q 020071          188 ----VPYVPEGLEAIIF---TADGDMRQALNNLQATY  217 (331)
Q Consensus       188 ----~~i~~~~~~~l~~---~~~g~~r~~~~~l~~~~  217 (331)
                          ..+++++++.+++   ..+||+|+|++.|+.+.
T Consensus       247 ~~~~~~i~~~ai~~~A~~vA~~~GD~R~Al~ilr~A~  283 (318)
T 3te6_A          247 IVINHKINNKITQLIAKNVANVSGSTEKAFKICEAAV  283 (318)
T ss_dssp             EEECEECCHHHHHHHHHHHHHHHCSHHHHHHHHHHHH
T ss_pred             cccccccCHHHHHHHHHHHHhhCChHHHHHHHHHHHH
Confidence                1369999999998   57899999999998763

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.82  E-value=9.5e-20  Score=160.57  Aligned_cols=185  Identities=17%  Similarity=0.198  Sum_probs=140.0

Q ss_pred             CccccCHHHHHHHHHHHHcCC--------CC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHH
Q 020071           25 CDIVGNLDAVARLGIIARDGN--------MP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRN   95 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~~--------~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~   95 (331)
                      .+++|++.+++.+...+..+.        .. +++|+||+|+|||++|+.+++.+.+.  ..+++.+++...........
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~--~~~~~~~~~~~~~~~~~~~~   94 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHAVSR   94 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC--GGGEEEEEGGGCCSTTHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC--CcceEEeecccccccccHHH
Confidence            468899999999988887642        22 48999999999999999999998654  34566777654322111111


Q ss_pred             HH---------------HHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeC
Q 020071           96 KI---------------KMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACN  149 (331)
Q Consensus        96 ~i---------------~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~  149 (331)
                      .+               .....      ...+.+++|||+|.++...++.|++++++..           .++.+|+++|
T Consensus        95 l~g~~~~~~~~~~~~~~~~~~~------~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~ttn  168 (311)
T 4fcw_A           95 LIGAPPGYVGYEEGGQLTEAVR------RRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTSN  168 (311)
T ss_dssp             HHCCCTTSTTTTTCCHHHHHHH------HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEEES
T ss_pred             hcCCCCccccccccchHHHHHH------hCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEecc
Confidence            11               11111      1235799999999999999999999999764           3566899998


Q ss_pred             C--------------------------CCCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhc---------CCCCCHH
Q 020071          150 V--------------------------SSKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEE---------KVPYVPE  193 (331)
Q Consensus       150 ~--------------------------~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~i~~~  193 (331)
                      .                          ...+.+.+.+|+ .++.|.|++.+++..++...+.+.         .+.++++
T Consensus       169 ~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~  248 (311)
T 4fcw_A          169 LGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYLRARLAEKRISLELTEA  248 (311)
T ss_dssp             TTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHHHHHHHTTTCEEEECHH
T ss_pred             cCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHhCCcEEEeCHH
Confidence            7                          346778899999 678999999999999988765542         3568999


Q ss_pred             HHHHHHHhc---CCCHHHHHHHHHHHh
Q 020071          194 GLEAIIFTA---DGDMRQALNNLQATY  217 (331)
Q Consensus       194 ~~~~l~~~~---~g~~r~~~~~l~~~~  217 (331)
                      +++.|++++   .||.|.+.+.++.+.
T Consensus       249 ~~~~l~~~~~~~~gn~R~L~~~i~~~~  275 (311)
T 4fcw_A          249 AKDFLAERGYDPVFGARPLRRVIQREL  275 (311)
T ss_dssp             HHHHHHHHSCBTTTBTTTHHHHHHHHT
T ss_pred             HHHHHHHhCCCccCCchhHHHHHHHHH
Confidence            999999976   489999999987653

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.81  E-value=2.1e-18  Score=156.45  Aligned_cols=197  Identities=19%  Similarity=0.223  Sum_probs=139.3

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      ..+|+|+.|.+++++.|...+.-           | ..|. +|||||||||||++|+++|..+     +.+++.+++++.
T Consensus       177 ~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~-----~~~~~~v~~s~l  251 (437)
T 4b4t_L          177 EITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI-----GANFIFSPASGI  251 (437)
T ss_dssp             SSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCEEEEEEGGGT
T ss_pred             CCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEehhhh
Confidence            34899999999999998887642           3 2233 9999999999999999999999     788888887655


Q ss_pred             CC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHh--cCCcEEE
Q 020071           88 RG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIY--SNSTRFA  145 (331)
Q Consensus        88 ~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~--~~~~~~I  145 (331)
                      .+      ...++..+..+..       ..+.||||||+|.+..              ...+.|+..|+..  ..++.+|
T Consensus       252 ~sk~~Gese~~ir~~F~~A~~-------~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI  324 (437)
T 4b4t_L          252 VDKYIGESARIIREMFAYAKE-------HEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKII  324 (437)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHH-------SCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEE
T ss_pred             ccccchHHHHHHHHHHHHHHh-------cCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEE
Confidence            32      1233444333332       2367999999998731              1245677777643  3467899


Q ss_pred             EeeCCCCCCChhhhcc--c-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH---h-
Q 020071          146 LACNVSSKIIEPIQSR--C-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT---Y-  217 (331)
Q Consensus       146 ~~~~~~~~l~~~l~sr--~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~---~-  217 (331)
                      ++||.+..+.++++++  + ..+.|++|+.++..++++..+++.... ++..++.+++.+.| +...+.+++..+   + 
T Consensus       325 ~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~d~dl~~lA~~t~G~sGADi~~l~~eA~~~ai  403 (437)
T 4b4t_L          325 MATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKT-GEFDFEAAVKMSDGFNGADIRNCATEAGFFAI  403 (437)
T ss_dssp             EEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBC-SCCCHHHHHHTCCSCCHHHHHHHHHHHHHHHH
T ss_pred             EecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999876  4 358999999999999998887765432 22236788988866 444444444332   1 


Q ss_pred             -hCCCccchhhhhh
Q 020071          218 -SGFRFVNQENVFK  230 (331)
Q Consensus       218 -~~~~~i~~~~v~~  230 (331)
                       .+...|+.+++.+
T Consensus       404 r~~~~~i~~~d~~~  417 (437)
T 4b4t_L          404 RDDRDHINPDDLMK  417 (437)
T ss_dssp             HTTCSSBCHHHHHH
T ss_pred             HcCCCCCCHHHHHH
Confidence             3445566665544

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.81  E-value=1.9e-18  Score=154.64  Aligned_cols=201  Identities=18%  Similarity=0.182  Sum_probs=140.7

Q ss_pred             hhcCCCCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           17 EKYRPTKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        17 ~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      ++-...+|+|+.|.+++++.|+..+..           | ..|. +|||||||||||++|+++|.++     +.+++.++
T Consensus       174 ~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~-----~~~fi~v~  248 (437)
T 4b4t_I          174 DKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT-----SATFLRIV  248 (437)
T ss_dssp             ESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH-----TCEEEEEE
T ss_pred             ccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh-----CCCEEEEE
Confidence            343445999999999999999887642           3 2233 9999999999999999999999     78888888


Q ss_pred             cCCCCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHH--hcCC
Q 020071           84 ASDDRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEI--YSNS  141 (331)
Q Consensus        84 ~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~--~~~~  141 (331)
                      +++..+      ...++..+..+...       .+.||||||+|.+..              .....|+..++.  ...+
T Consensus       249 ~s~l~sk~vGesek~ir~lF~~Ar~~-------aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~  321 (437)
T 4b4t_I          249 GSELIQKYLGDGPRLCRQIFKVAGEN-------APSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGD  321 (437)
T ss_dssp             SGGGCCSSSSHHHHHHHHHHHHHHHT-------CSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSS
T ss_pred             HHHhhhccCchHHHHHHHHHHHHHhc-------CCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCC
Confidence            765422      12344444444332       367999999997731              123455666663  3356


Q ss_pred             cEEEEeeCCCCCCChhhhc--ccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH-
Q 020071          142 TRFALACNVSSKIIEPIQS--RCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT-  216 (331)
Q Consensus       142 ~~~I~~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~-  216 (331)
                      +.+|++||.++.+.+++++  |+. .+.|+.|+.++..++++..+++..+. ++-.++.|++.+.| +...+.+++..+ 
T Consensus       322 ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~-~dvdl~~LA~~T~GfSGADI~~l~~eA~  400 (437)
T 4b4t_I          322 VKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLS-EDVNLETLVTTKDDLSGADIQAMCTEAG  400 (437)
T ss_dssp             EEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBC-SCCCHHHHHHHCCSCCHHHHHHHHHHHH
T ss_pred             EEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCC-CcCCHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            7889999999999999987  664 57999999999999998887654432 12237888888765 444444444332 


Q ss_pred             --h--hCCCccchhhhhh
Q 020071          217 --Y--SGFRFVNQENVFK  230 (331)
Q Consensus       217 --~--~~~~~i~~~~v~~  230 (331)
                        +  .+...|+.+++.+
T Consensus       401 ~~Air~~~~~It~eDf~~  418 (437)
T 4b4t_I          401 LLALRERRMQVTAEDFKQ  418 (437)
T ss_dssp             HHHHHTTCSCBCHHHHHH
T ss_pred             HHHHHcCCCccCHHHHHH
Confidence              1  3445566666554

>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=99.81  E-value=1.6e-18  Score=155.22  Aligned_cols=215  Identities=18%  Similarity=0.122  Sum_probs=141.5

Q ss_pred             hhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCC----CCCC---------------
Q 020071           17 EKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP----NYRE---------------   77 (331)
Q Consensus        17 ~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~----~~~~---------------   77 (331)
                      ..-+|.+|++++|++.++..+..........+++|+||+|+|||++|+++++.+...    ....               
T Consensus        16 ~~~~~~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (350)
T 1g8p_A           16 KTRPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVL   95 (350)
T ss_dssp             --CCCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCS
T ss_pred             CCCCCCCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccchhhhh
Confidence            444678999999999988876666554444569999999999999999999987421    0001               


Q ss_pred             ---------ceEEeecCCC----CChHhHHHHHHHHHhccc--CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh----
Q 020071           78 ---------AVMELNASDD----RGIDVVRNKIKMFAQKKV--TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY----  138 (331)
Q Consensus        78 ---------~~~~~~~~~~----~~~~~i~~~i~~~~~~~~--~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~----  138 (331)
                               +++.+.....    .+...+...+........  ....+.+.+++|||++.++.+.++.|++.+++.    
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~~  175 (350)
T 1g8p_A           96 STNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVV  175 (350)
T ss_dssp             CCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEE
T ss_pred             ccccccCCCcccccCCCcchhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCCHHHHHHHHHHHhcCceEE
Confidence                     1111111100    000001111111100000  000123679999999999999999999999973    


Q ss_pred             ---------cCCcEEEEeeCCCC-CCChhhhcccce-eeecCCC-HHHHHHHHHHH------------------------
Q 020071          139 ---------SNSTRFALACNVSS-KIIEPIQSRCAI-VRFSRLS-DEEILSRLMVV------------------------  182 (331)
Q Consensus       139 ---------~~~~~~I~~~~~~~-~l~~~l~sr~~~-i~~~~~~-~~~~~~~l~~~------------------------  182 (331)
                               +.++++|+++|... .+.+++.+||.. +.+++++ .++..+++..+                        
T Consensus       176 ~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~R~~~~~~l~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~  255 (350)
T 1g8p_A          176 ERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQ  255 (350)
T ss_dssp             CCTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHH
T ss_pred             EecceEEeeCCceEEEEEeCCCCCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHHHhcccCchhhccccccchHHHHHH
Confidence                     24677888888644 899999999976 8999995 44444555441                        


Q ss_pred             -----HHhcCCCCCHHHHHHHHHhcCC----CHHHHHHHHHHHh-----hCCCccchhhhhhh
Q 020071          183 -----VQEEKVPYVPEGLEAIIFTADG----DMRQALNNLQATY-----SGFRFVNQENVFKV  231 (331)
Q Consensus       183 -----~~~~~~~i~~~~~~~l~~~~~g----~~r~~~~~l~~~~-----~~~~~i~~~~v~~~  231 (331)
                           ....++.++++++++|++.+.+    ++|.+.+.++.+.     .+...|+.+++.++
T Consensus       256 i~~~~~~~~~~~ls~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~~~~~v~~~~v~~a  318 (350)
T 1g8p_A          256 ILEARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKRV  318 (350)
T ss_dssp             HHHHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHHH
T ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHH
Confidence                 2234568999999999988765    8999999987542     34456888877653

>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=99.81  E-value=1.1e-18  Score=150.28  Aligned_cols=204  Identities=15%  Similarity=0.173  Sum_probs=139.1

Q ss_pred             CCCccccCHHHHHHHHHHHHc--CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           23 KVCDIVGNLDAVARLGIIARD--GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      +|++++|++..+..+.+.+..  ....+++|+||+|+|||++|+++++.....  ..+++.+++... ..+.+...+-..
T Consensus         4 ~f~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~--~~~~~~v~~~~~-~~~~~~~~l~g~   80 (265)
T 2bjv_A            4 YKDNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRW--QGPFISLNCAAL-NENLLDSELFGH   80 (265)
T ss_dssp             ------CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTT--TSCEEEEEGGGS-CHHHHHHHHHCC
T ss_pred             ccccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCcc--CCCeEEEecCCC-ChhHHHHHhcCC
Confidence            688999999999887776654  222359999999999999999999987433  357888888765 222222211000


Q ss_pred             Hhccc---------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCC-------CC
Q 020071          101 AQKKV---------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVS-------SK  153 (331)
Q Consensus       101 ~~~~~---------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~-------~~  153 (331)
                      ....+         .+......+++|||++.++.+.++.|++++++.           +.++++|+++|..       ..
T Consensus        81 ~~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~~~~~~~  160 (265)
T 2bjv_A           81 EAGAFTGAQKRHPGRFERADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVNEGT  160 (265)
T ss_dssp             C---------CCCCHHHHTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHHHHHHTS
T ss_pred             cccccccccccccchhhhcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHHHHHcCC
Confidence            00000         000124579999999999999999999999963           3568899999874       25


Q ss_pred             CChhhhcccc--eeeecCCCH--HHHHHHH----HHHHHhcCC----CCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--h
Q 020071          154 IIEPIQSRCA--IVRFSRLSD--EEILSRL----MVVVQEEKV----PYVPEGLEAIIFTA-DGDMRQALNNLQATY--S  218 (331)
Q Consensus       154 l~~~l~sr~~--~i~~~~~~~--~~~~~~l----~~~~~~~~~----~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~  218 (331)
                      +.+.+.+|+.  .+.++|++.  +++..++    ...+.+.+.    .+++++++.|..+. .||+|.+.+.++.+.  .
T Consensus       161 ~~~~L~~Rl~~~~i~lp~L~~R~~di~~l~~~~l~~~~~~~~~~~~~~~~~~a~~~L~~~~~~gn~reL~~~l~~~~~~~  240 (265)
T 2bjv_A          161 FRADLLDALAFDVVQLPPLRERESDIMLMAEYFAIQMCREIKLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYRH  240 (265)
T ss_dssp             SCHHHHHHHCSEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCSSCCCBCHHHHHHHHHSCCTTHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHhhcCcEEeCCChhhhhHHHHHHHHHHHHHHHHHhCCCcccCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHHhC
Confidence            6789999984  468888875  5665544    444444554    68999999998876 899999999998764  3


Q ss_pred             CCCccchhhhh
Q 020071          219 GFRFVNQENVF  229 (331)
Q Consensus       219 ~~~~i~~~~v~  229 (331)
                      ....|+.+++.
T Consensus       241 ~~~~i~~~~l~  251 (265)
T 2bjv_A          241 GTSDYPLDDII  251 (265)
T ss_dssp             CCSSSCBCCCC
T ss_pred             CCCcCcHHHcc
Confidence            45567777664

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.81  E-value=2.8e-18  Score=155.05  Aligned_cols=196  Identities=19%  Similarity=0.233  Sum_probs=137.2

Q ss_pred             CCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           22 TKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      .+|+|+.|.+++++.|+..+.-           | ..|. +|||||||||||++|+++|.++     +.+++.+++++..
T Consensus       206 vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~-----~~~fi~vs~s~L~  280 (467)
T 4b4t_H          206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT-----DATFIRVIGSELV  280 (467)
T ss_dssp             CCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH-----TCEEEEEEGGGGC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc-----CCCeEEEEhHHhh
Confidence            4899999999999999876532           3 3333 9999999999999999999999     7888888876542


Q ss_pred             C------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------H---HHHHHHHHHHHh--cCCcEEEE
Q 020071           89 G------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------G---AQQALRRTMEIY--SNSTRFAL  146 (331)
Q Consensus        89 ~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~---~~~~Ll~~le~~--~~~~~~I~  146 (331)
                      +      ...+++.+..+...       .+.||||||+|.+..           .   ....|+..|+..  ..++.+|+
T Consensus       281 sk~vGesek~ir~lF~~Ar~~-------aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIa  353 (467)
T 4b4t_H          281 QKYVGEGARMVRELFEMARTK-------KACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMF  353 (467)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHT-------CSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEE
T ss_pred             cccCCHHHHHHHHHHHHHHhc-------CCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEe
Confidence            2      22444444444332       367999999998731           1   234455555532  34677888


Q ss_pred             eeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH-----h
Q 020071          147 ACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT-----Y  217 (331)
Q Consensus       147 ~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~-----~  217 (331)
                      +||.+..+.+++++  |+ ..+.|+.|+.++..++++..+++..+. ++-.++.|++.+.| +...+.+++..+     .
T Consensus       354 ATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~-~dvdl~~LA~~T~GfSGADI~~l~~eAa~~Air  432 (467)
T 4b4t_H          354 ATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVE-RGIRWELISRLCPNSTGAELRSVCTEAGMFAIR  432 (467)
T ss_dssp             ECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBC-SSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999987  77 457999999999999998877654432 11236788888866 444444444332     1


Q ss_pred             hCCCccchhhhhh
Q 020071          218 SGFRFVNQENVFK  230 (331)
Q Consensus       218 ~~~~~i~~~~v~~  230 (331)
                      .+...|+.+++.+
T Consensus       433 ~~~~~it~~Df~~  445 (467)
T 4b4t_H          433 ARRKVATEKDFLK  445 (467)
T ss_dssp             HTCSSBCHHHHHH
T ss_pred             cCCCccCHHHHHH
Confidence            3455666666544

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.80  E-value=1.3e-18  Score=157.58  Aligned_cols=199  Identities=18%  Similarity=0.204  Sum_probs=139.5

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      .+.+|+|+.|.+++++.|...+..           | ..|. +|||||||||||++|+++|.++     +.+++.+++++
T Consensus       176 p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~-----~~~f~~v~~s~  250 (434)
T 4b4t_M          176 PTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT-----NATFLKLAAPQ  250 (434)
T ss_dssp             CSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH-----TCEEEEEEGGG
T ss_pred             CCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh-----CCCEEEEehhh
Confidence            445899999999999998876431           3 2233 9999999999999999999999     78888888765


Q ss_pred             CCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HH---HHHHHHHHHHHh--cCCcEE
Q 020071           87 DRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AG---AQQALRRTMEIY--SNSTRF  144 (331)
Q Consensus        87 ~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~---~~~~Ll~~le~~--~~~~~~  144 (331)
                      ..+      ...++..+..+...       .+.||||||+|.+.           ..   ..+.|+..|+..  ..++.+
T Consensus       251 l~~~~vGese~~ir~lF~~A~~~-------aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViV  323 (434)
T 4b4t_M          251 LVQMYIGEGAKLVRDAFALAKEK-------APTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKV  323 (434)
T ss_dssp             GCSSCSSHHHHHHHHHHHHHHHH-------CSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEE
T ss_pred             hhhcccchHHHHHHHHHHHHHhc-------CCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEE
Confidence            422      22344444443332       25799999998662           11   234566666643  346788


Q ss_pred             EEeeCCCCCCChhhhc--ccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH----
Q 020071          145 ALACNVSSKIIEPIQS--RCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT----  216 (331)
Q Consensus       145 I~~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~----  216 (331)
                      |.+||.+..+.+++.+  |+. .+.|++|+.++..++++..+++.... ++-.++.|++.+.| +...+.+.+..+    
T Consensus       324 IaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~-~dvdl~~lA~~t~G~sGADi~~l~~eA~~~a  402 (434)
T 4b4t_M          324 LAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTD-DDINWQELARSTDEFNGAQLKAVTVEAGMIA  402 (434)
T ss_dssp             EEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBC-SCCCHHHHHHHCSSCCHHHHHHHHHHHHHHH
T ss_pred             EEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCC-CcCCHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence            8899999999999987  664 57999999999999998887765432 11236788888766 444444444432    


Q ss_pred             -hhCCCccchhhhhhh
Q 020071          217 -YSGFRFVNQENVFKV  231 (331)
Q Consensus       217 -~~~~~~i~~~~v~~~  231 (331)
                       ..+...|+.+++.+.
T Consensus       403 ~r~~~~~i~~~Df~~A  418 (434)
T 4b4t_M          403 LRNGQSSVKHEDFVEG  418 (434)
T ss_dssp             HHHTCSSBCHHHHHHH
T ss_pred             HHcCCCCcCHHHHHHH
Confidence             144556777766543

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.80  E-value=3.1e-18  Score=155.06  Aligned_cols=196  Identities=19%  Similarity=0.254  Sum_probs=138.7

Q ss_pred             CCCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           22 TKVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      .+|+|+.|.+++++.|...+..           | ..|. +|||||||||||++|+++|..+     +.+++.+++++..
T Consensus       169 v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~-----~~~~~~v~~~~l~  243 (428)
T 4b4t_K          169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST-----KAAFIRVNGSEFV  243 (428)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH-----TCEEEEEEGGGTC
T ss_pred             CCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCeEEEecchhh
Confidence            4899999999999998887642           3 2233 9999999999999999999999     7889988876642


Q ss_pred             C------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC--------------HHHHHHHHHHHHHh--cCCcEEEE
Q 020071           89 G------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT--------------AGAQQALRRTMEIY--SNSTRFAL  146 (331)
Q Consensus        89 ~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~--------------~~~~~~Ll~~le~~--~~~~~~I~  146 (331)
                      +      ...+++.+..+...       .+.+++|||+|.+.              ....+.|+..|+..  ..++.+|+
T Consensus       244 ~~~~Ge~e~~ir~lF~~A~~~-------aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~  316 (428)
T 4b4t_K          244 HKYLGEGPRMVRDVFRLAREN-------APSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIM  316 (428)
T ss_dssp             CSSCSHHHHHHHHHHHHHHHT-------CSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEE
T ss_pred             ccccchhHHHHHHHHHHHHHc-------CCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEE
Confidence            2      23455555444432       36799999998551              12356777777753  45678899


Q ss_pred             eeCCCCCCChhhhc--ccc-eeeec-CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH-----
Q 020071          147 ACNVSSKIIEPIQS--RCA-IVRFS-RLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT-----  216 (331)
Q Consensus       147 ~~~~~~~l~~~l~s--r~~-~i~~~-~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~-----  216 (331)
                      +||.+..+.+++++  |+. .+.|+ +|+.++...+++..+++.++. ++..++.|+..+.| +...+.+.+..+     
T Consensus       317 aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~-~~~dl~~lA~~t~G~sgadi~~l~~eA~~~a~  395 (428)
T 4b4t_K          317 ATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLA-PEADLDSLIIRNDSLSGAVIAAIMQEAGLRAV  395 (428)
T ss_dssp             EESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBC-TTCCHHHHHHHTTTCCHHHHHHHHHHHHHHHH
T ss_pred             ecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999987  664 57885 688888888888877655432 22247888888765 444444444432     


Q ss_pred             hhCCCccchhhhhh
Q 020071          217 YSGFRFVNQENVFK  230 (331)
Q Consensus       217 ~~~~~~i~~~~v~~  230 (331)
                      ..+...|+.+++.+
T Consensus       396 r~~~~~i~~~d~~~  409 (428)
T 4b4t_K          396 RKNRYVILQSDLEE  409 (428)
T ss_dssp             HTTCSSBCHHHHHH
T ss_pred             HCCCCCCCHHHHHH
Confidence            13445677666654

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=99.79  E-value=5.1e-18  Score=156.18  Aligned_cols=201  Identities=19%  Similarity=0.174  Sum_probs=144.4

Q ss_pred             cCCCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           19 YRPTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        19 ~~p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      ..+.+|+|++|++.++..+...+..           ...| +++|+||||+|||++|++++...     +.+++.+++++
T Consensus        10 ~~~~~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~-----~~~f~~is~~~   84 (476)
T 2ce7_A           10 NKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA-----NVPFFHISGSD   84 (476)
T ss_dssp             SCCCCGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH-----TCCEEEEEGGG
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCeeeCCHHH
Confidence            3445899999999999988777543           2233 49999999999999999999998     67788888765


Q ss_pred             CCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHH--hcCCcEE
Q 020071           87 DRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEI--YSNSTRF  144 (331)
Q Consensus        87 ~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~--~~~~~~~  144 (331)
                      ...      ...++..+..+..       ..+.++||||+|.+..              ...+.|+..++.  ...++++
T Consensus        85 ~~~~~~g~~~~~~r~lf~~A~~-------~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viV  157 (476)
T 2ce7_A           85 FVELFVGVGAARVRDLFAQAKA-------HAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIV  157 (476)
T ss_dssp             TTTCCTTHHHHHHHHHHHHHHH-------TCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEE
T ss_pred             HHHHHhcccHHHHHHHHHHHHh-------cCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEE
Confidence            421      1233444443332       2367999999998743              245677777764  3456788


Q ss_pred             EEeeCCCCCCChhhhc--ccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCH-HHHHHHHHHHh---
Q 020071          145 ALACNVSSKIIEPIQS--RCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDM-RQALNNLQATY---  217 (331)
Q Consensus       145 I~~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~-r~~~~~l~~~~---  217 (331)
                      |.+||.+..+.+++.+  |+. .+.+++|+.++..++++..+++..+. ++..+..++..+.|+. +.+.+.++.++   
T Consensus       158 IaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~-~~v~l~~la~~t~G~sgadL~~lv~~Aal~A  236 (476)
T 2ce7_A          158 MAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLA-EDVNLEIIAKRTPGFVGADLENLVNEAALLA  236 (476)
T ss_dssp             EEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCc-chhhHHHHHHhcCCCcHHHHHHHHHHHHHHH
Confidence            8899998888888876  664 67999999999999998777654432 2223777999998876 66777776542   


Q ss_pred             --hCCCccchhhhhhhc
Q 020071          218 --SGFRFVNQENVFKVC  232 (331)
Q Consensus       218 --~~~~~i~~~~v~~~~  232 (331)
                        .+...|+.+++.+.+
T Consensus       237 ~~~~~~~I~~~dl~~al  253 (476)
T 2ce7_A          237 AREGRDKITMKDFEEAI  253 (476)
T ss_dssp             HHTTCSSBCHHHHHHHH
T ss_pred             HHcCCCeecHHHHHHHH
Confidence              244678888876543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.79  E-value=3.8e-19  Score=145.16  Aligned_cols=164  Identities=18%  Similarity=0.236  Sum_probs=119.6

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC-----CCceEEeecCC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY-----REAVMELNASD   86 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~   86 (331)
                      ..+|.++++|..|++++|++..+..+...+..+...+++|+||+|+|||++++.+++.+.+...     ...++.+++..
T Consensus         9 ~~~l~~~~~~~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (195)
T 1jbk_A            9 TIDLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA   88 (195)
T ss_dssp             EEEHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH
T ss_pred             hHHHHHHHhhccccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH
Confidence            3589999999999999999999999999998877667999999999999999999999854221     23455555322


Q ss_pred             C----CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------HHHHHHHHHHHHhcCCcEEEEeeCCCC--
Q 020071           87 D----RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------GAQQALRRTMEIYSNSTRFALACNVSS--  152 (331)
Q Consensus        87 ~----~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------~~~~~Ll~~le~~~~~~~~I~~~~~~~--  152 (331)
                      .    .........+.........  .+++.+++|||+|.+..        ..++.|..+++.  .++.+|++++...  
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~--~~~~~i~~~~~~~~~  164 (195)
T 1jbk_A           89 LVAGAKYRGEFEERLKGVLNDLAK--QEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEYR  164 (195)
T ss_dssp             HHTTTCSHHHHHHHHHHHHHHHHH--STTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHHH
T ss_pred             HhccCCccccHHHHHHHHHHHHhh--cCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhcc--CCeEEEEeCCHHHHH
Confidence            1    1112222222222221100  23467999999999953        236677777764  4577888887754  


Q ss_pred             ---CCChhhhcccceeeecCCCHHHHHHHH
Q 020071          153 ---KIIEPIQSRCAIVRFSRLSDEEILSRL  179 (331)
Q Consensus       153 ---~l~~~l~sr~~~i~~~~~~~~~~~~~l  179 (331)
                         .+.+++.+||..+.|.+|+.++..+++
T Consensus       165 ~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          165 QYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence               678999999999999999999887664

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=99.77  E-value=2.1e-18  Score=171.28  Aligned_cols=202  Identities=17%  Similarity=0.188  Sum_probs=142.3

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC-----CCceEEeecCC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY-----REAVMELNASD   86 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~   86 (331)
                      ..+|+++++|..|++++|++..+..+...+..+..++++|+||||+|||++++.+++.+.+...     +..++.+++..
T Consensus       157 ~~~l~~~~r~~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~  236 (854)
T 1qvr_A          157 GIDLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS  236 (854)
T ss_dssp             EEEHHHHHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--
T ss_pred             HHhHHHHHhcCCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHH
Confidence            4589999999999999999999999999999888778999999999999999999999854221     45567776654


Q ss_pred             CCC----hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC--------HHHHHHHHHHHHHhcCCcEEEEeeCCCC--
Q 020071           87 DRG----IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT--------AGAQQALRRTMEIYSNSTRFALACNVSS--  152 (331)
Q Consensus        87 ~~~----~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~--------~~~~~~Ll~~le~~~~~~~~I~~~~~~~--  152 (331)
                      ...    ...+.+.+.........  .+++.++||||+|.+.        .+..+.|..+++.  ..+.+|++++...  
T Consensus       237 l~~g~~~~g~~~~~l~~~~~~~~~--~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~i~~I~at~~~~~~  312 (854)
T 1qvr_A          237 LLAGAKYRGEFEERLKAVIQEVVQ--SQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEYR  312 (854)
T ss_dssp             ---------CHHHHHHHHHHHHHT--TCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHHH
T ss_pred             hhccCccchHHHHHHHHHHHHHHh--cCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CCeEEEEecCchHHh
Confidence            321    11222222222221110  2346799999999996        4456778888875  4567788877543  


Q ss_pred             --CCChhhhcccceeeecCCCHHHHHHHHHHHHH----hcCCCCCHHHHHHHHHhcCC------CHHHHHHHHHHHh
Q 020071          153 --KIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ----EEKVPYVPEGLEAIIFTADG------DMRQALNNLQATY  217 (331)
Q Consensus       153 --~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~i~~~~~~~l~~~~~g------~~r~~~~~l~~~~  217 (331)
                        .+.+++.+||..+.+++|+.++...+++..+.    ..++.++++++..++++++|      -+.+++..++.++
T Consensus       313 ~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~kai~lldea~  389 (854)
T 1qvr_A          313 EIEKDPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAA  389 (854)
T ss_dssp             HHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHH
T ss_pred             hhccCHHHHhCCceEEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChHHHHHHHHHHH
Confidence              46799999999999999999999999987655    34788999999999987743      4788888887653

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=99.77  E-value=1.1e-17  Score=146.59  Aligned_cols=185  Identities=19%  Similarity=0.187  Sum_probs=132.8

Q ss_pred             hcCCCCCCccccCHHHHHHHHHHHHc-----------C-CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           18 KYRPTKVCDIVGNLDAVARLGIIARD-----------G-NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        18 ~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      .+.+.+|++++|++.+++.+...+..           + ..+ +++|+||+|+|||++|+++++.+     +.+++.+++
T Consensus         8 ~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~-----~~~~i~v~~   82 (301)
T 3cf0_A            8 EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISIKG   82 (301)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT-----TCEEEEECH
T ss_pred             cCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh-----CCCEEEEEh
Confidence            45567899999999999999888753           2 222 38999999999999999999988     567777775


Q ss_pred             CCCC------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH--------------HHHHHHHHHHH--hcCCc
Q 020071           85 SDDR------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG--------------AQQALRRTMEI--YSNST  142 (331)
Q Consensus        85 ~~~~------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~--------------~~~~Ll~~le~--~~~~~  142 (331)
                      .+..      ....++..+.....       ..+.+++|||+|.+...              .++.|+..++.  ...++
T Consensus        83 ~~l~~~~~g~~~~~~~~~f~~a~~-------~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v  155 (301)
T 3cf0_A           83 PELLTMWFGESEANVREIFDKARQ-------AAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV  155 (301)
T ss_dssp             HHHHHHHHTTCTTHHHHHHHHHHH-------TCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSE
T ss_pred             HHHHhhhcCchHHHHHHHHHHHHh-------cCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCE
Confidence            4321      11233344333322       23679999999987543              36788888874  34578


Q ss_pred             EEEEeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHH
Q 020071          143 RFALACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQA  215 (331)
Q Consensus       143 ~~I~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~  215 (331)
                      ++|++||.+..+.+++.+  |+ ..+.+++|+.++..++++..+++.+.. ++..++.++..+.| +.+.+.+.++.
T Consensus       156 ~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~-~~~~~~~la~~~~g~sg~dl~~l~~~  231 (301)
T 3cf0_A          156 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQR  231 (301)
T ss_dssp             EEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-SSCCHHHHHHTCSSCCHHHHHHHHHH
T ss_pred             EEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCC-ccchHHHHHHHcCCCCHHHHHHHHHH
Confidence            899999999999999888  77 468999999999999999888766543 22235567776654 34455555544

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=99.77  E-value=2.5e-18  Score=162.08  Aligned_cols=214  Identities=21%  Similarity=0.251  Sum_probs=145.0

Q ss_pred             CCchhhhcCCCC---------CCccccCHHHHHHHHHHHHc------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC
Q 020071           12 DIPWVEKYRPTK---------VCDIVGNLDAVARLGIIARD------GNMPNLILAGPPGTGKTTSILALAHELLGPNYR   76 (331)
Q Consensus        12 ~~~~~~~~~p~~---------~~~~ig~~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~   76 (331)
                      .+||....++..         .++++|++++...+...+.-      ...++++|+||+|+|||++++.++..+     .
T Consensus        59 ~lp~~~~~~~~~~~~~~~~~l~~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l-----~  133 (543)
T 3m6a_A           59 ALPWTDETDDKLDLKEAGRLLDEEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL-----G  133 (543)
T ss_dssp             HSCSSCCCCCCCCTTTGGGTHHHHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH-----T
T ss_pred             cCCCCccccccccHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc-----C
Confidence            357766554332         34589999999877655431      223458999999999999999999998     5


Q ss_pred             CceEEeecCCCCChHhHH-----------HHHHHHHhcccCCCCCCceEEEEeCCCCCCHH----HHHHHHHHHHHhc--
Q 020071           77 EAVMELNASDDRGIDVVR-----------NKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG----AQQALRRTMEIYS--  139 (331)
Q Consensus        77 ~~~~~~~~~~~~~~~~i~-----------~~i~~~~~~~~~~~~~~~~vviide~d~l~~~----~~~~Ll~~le~~~--  139 (331)
                      .++..+++........+.           ..+.......    .....+++|||+|.+..+    .++.|++.++...  
T Consensus       134 ~~~~~i~~~~~~~~~~~~g~~~~~ig~~~~~~~~~~~~a----~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~  209 (543)
T 3m6a_A          134 RKFVRISLGGVRDESEIRGHRRTYVGAMPGRIIQGMKKA----GKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNS  209 (543)
T ss_dssp             CEEEEECCCC--------------------CHHHHHHTT----CSSSEEEEEEESSSCC---------CCGGGTCTTTTT
T ss_pred             CCeEEEEecccchhhhhhhHHHHHhccCchHHHHHHHHh----hccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcc
Confidence            667777665432111110           0111111111    223459999999999876    4588898887432  


Q ss_pred             -------------CCcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHH-----Hhc-----CCCCCHHHHH
Q 020071          140 -------------NSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVV-----QEE-----KVPYVPEGLE  196 (331)
Q Consensus       140 -------------~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~-----~~~-----~~~i~~~~~~  196 (331)
                                   .+++||+++|....+.+++++||.++.|++|+.++...++...+     +..     ++.++++++.
T Consensus       210 ~~~~~~~~~~~~~~~v~iI~ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~  289 (543)
T 3m6a_A          210 SFSDHYIEETFDLSKVLFIATANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAIL  289 (543)
T ss_dssp             BCCCSSSCCCCBCSSCEEEEECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHH
T ss_pred             eeecccCCeeecccceEEEeccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHH
Confidence                         46789999999999999999999999999999999988887765     222     4467899999


Q ss_pred             HHHHhcC--CCHHHHHHHHHHHh--------h---CCCccchhhhhhhcCC
Q 020071          197 AIIFTAD--GDMRQALNNLQATY--------S---GFRFVNQENVFKVCDQ  234 (331)
Q Consensus       197 ~l~~~~~--g~~r~~~~~l~~~~--------~---~~~~i~~~~v~~~~~~  234 (331)
                      .++....  |++|.+.+.++.++        .   ....|+.+++.++++.
T Consensus       290 ~l~~~~~~~~~vR~L~~~i~~~~~~aa~~~~~~~~~~~~It~~~l~~~Lg~  340 (543)
T 3m6a_A          290 DIIRYYTREAGVRSLERQLAAICRKAAKAIVAEERKRITVTEKNLQDFIGK  340 (543)
T ss_dssp             HHHHHHCCCSSSHHHHHHHHHHHHHHHHHHHTTCCSCCEECTTTTHHHHCS
T ss_pred             HHHHhCChhhchhHHHHHHHHHHHHHHHHHHhcCCcceecCHHHHHHHhCC
Confidence            9887443  78888887776542        1   2335888888877655

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.77  E-value=7.6e-18  Score=165.65  Aligned_cols=218  Identities=14%  Similarity=0.144  Sum_probs=155.5

Q ss_pred             CCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC-----CCceEEee
Q 020071            9 SAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY-----REAVMELN   83 (331)
Q Consensus         9 ~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~   83 (331)
                      .....+|+++++|..|++++|++..+..+.+.+......+++|+||+|+|||++|+.+++.+.+...     ...++.++
T Consensus       170 ~~~~~~l~~~~~~~~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~  249 (758)
T 1r6b_X          170 ENFTTNLNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD  249 (758)
T ss_dssp             CSSSCBHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECC
T ss_pred             HHHhHhHHHHHhcCCCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEc
Confidence            4456699999999999999999999999999998887778999999999999999999999865321     22334443


Q ss_pred             cCCCC----ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC---------CHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071           84 ASDDR----GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM---------TAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus        84 ~~~~~----~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l---------~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .....    ....+.+.+........   ..++.++||||+|.+         ..+..+.|..+++.  ..+++|++++.
T Consensus       250 ~~~l~~~~~~~g~~e~~l~~~~~~~~---~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~--~~~~~I~at~~  324 (758)
T 1r6b_X          250 IGSLLAGTKYRGDFEKRFKALLKQLE---QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTY  324 (758)
T ss_dssp             CC---CCCCCSSCHHHHHHHHHHHHS---SSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS--CCCEEEEEECH
T ss_pred             HHHHhccccccchHHHHHHHHHHHHH---hcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC--CCeEEEEEeCc
Confidence            32211    11123333333332221   234689999999998         23345555555553  45778888775


Q ss_pred             C-----CCCChhhhcccceeeecCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcCC------CHHHHHHHHHH
Q 020071          151 S-----SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE----EKVPYVPEGLEAIIFTADG------DMRQALNNLQA  215 (331)
Q Consensus       151 ~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~g------~~r~~~~~l~~  215 (331)
                      .     ....+++.+||..+.|++|+.++..+++...+..    .++.++++++..++..+.|      .+.+++..++.
T Consensus       325 ~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~lp~~~i~lld~  404 (758)
T 1r6b_X          325 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDE  404 (758)
T ss_dssp             HHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHH
T ss_pred             hHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccccCchHHHHHHHH
Confidence            3     3566889999999999999999999999887654    6788999999998877643      45677777765


Q ss_pred             Hhh---------CCCccchhhhhhh
Q 020071          216 TYS---------GFRFVNQENVFKV  231 (331)
Q Consensus       216 ~~~---------~~~~i~~~~v~~~  231 (331)
                      +..         ....++.+++.++
T Consensus       405 a~~~~~~~~~~~~~~~v~~~di~~~  429 (758)
T 1r6b_X          405 AGARARLMPVSKRKKTVNVADIESV  429 (758)
T ss_dssp             HHHHHHHSSSCCCCCSCCHHHHHHH
T ss_pred             HHHHHhcccccccCCccCHHHHHHH
Confidence            431         2345777777654

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.77  E-value=2.9e-17  Score=143.90  Aligned_cols=204  Identities=15%  Similarity=0.204  Sum_probs=142.6

Q ss_pred             CccccCHHHHHHHHHHHHc--CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHh
Q 020071           25 CDIVGNLDAVARLGIIARD--GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQ  102 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~  102 (331)
                      ++++|++..+..+...+..  ....+++|+||+|+|||++|+++++.....  +.+++.+++.... .+.+...+-....
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~--~~~~v~v~~~~~~-~~l~~~~lfg~~~   78 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSARS--DRPLVTLNCAALN-ESLLESELFGHEK   78 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSSCS--SSCCCEEECSSCC-HHHHHHHHTCCCS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCccc--CCCeEEEeCCCCC-hHHHHHHhcCccc
Confidence            4689999999988887765  233359999999999999999999976433  4578888887652 2222211100000


Q ss_pred             cccC---------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCC-------CCCC
Q 020071          103 KKVT---------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVS-------SKII  155 (331)
Q Consensus       103 ~~~~---------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~-------~~l~  155 (331)
                      ..++         +....+.++||||++.++.+.+..|++++++.           +.++++|++||..       ..+.
T Consensus        79 g~~tg~~~~~~g~~~~a~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~~~v~~g~fr  158 (304)
T 1ojl_A           79 GAFTGADKRREGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEEVSAGRFR  158 (304)
T ss_dssp             SCCC---CCCCCHHHHHTTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHHHHHTSSC
T ss_pred             cccCchhhhhcCHHHhcCCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHHHHhCCcH
Confidence            0000         00123569999999999999999999999964           3468899999874       3466


Q ss_pred             hhhhcccce--eeecCCC--HHHHHHHHHHH----HHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hCCC
Q 020071          156 EPIQSRCAI--VRFSRLS--DEEILSRLMVV----VQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATY--SGFR  221 (331)
Q Consensus       156 ~~l~sr~~~--i~~~~~~--~~~~~~~l~~~----~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~~~  221 (331)
                      +.+.+|+.+  +.++|+.  .+++..++...    +.+.+   ..+++++++.|..++ .||+|.+.+.++.++  ....
T Consensus       159 ~~L~~Rl~~~~i~lPpL~eR~edi~~l~~~~l~~~~~~~~~~~~~~s~~a~~~L~~~~wpGnvReL~~~l~~~~~~~~~~  238 (304)
T 1ojl_A          159 QDLYYRLNVVAIEMPSLRQRREDIPLLADHFLRRFAERNRKVVKGFTPQAMDLLIHYDWPGNIRELENAIERAVVLLTGE  238 (304)
T ss_dssp             HHHHHHHSSEEEECCCSGGGGGGHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHHCCCSSHHHHHHHHHHHHHHHCCSS
T ss_pred             HHHHhhcCeeEEeccCHHHhHhhHHHHHHHHHHHHHHHhccCccCCCHHHHHHHHcCCCCCCHHHHHHHHHHHHHhCCCC
Confidence            788888644  5688887  45555555443    33333   568999999999998 899999999998764  3455


Q ss_pred             ccchhhhhhh
Q 020071          222 FVNQENVFKV  231 (331)
Q Consensus       222 ~i~~~~v~~~  231 (331)
                      .|+.+++...
T Consensus       239 ~i~~~~l~~~  248 (304)
T 1ojl_A          239 YISERELPLA  248 (304)
T ss_dssp             SBCGGGSCGG
T ss_pred             cccHHhhhhh
Confidence            6887777543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.76  E-value=4.7e-18  Score=166.96  Aligned_cols=194  Identities=16%  Similarity=0.219  Sum_probs=144.2

Q ss_pred             CCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEEeec
Q 020071           10 AYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVMELNA   84 (331)
Q Consensus        10 ~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~   84 (331)
                      ....+|+++++|..+++++|++..+..+...+.....+|+||+||||+|||++|+.+++.+.+..     .+..++.+++
T Consensus       165 ~~~~~l~~~~~~~~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~  244 (758)
T 3pxi_A          165 SLARDLTAIAKEDSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM  244 (758)
T ss_dssp             SSCCBHHHHTTSSCSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC--
T ss_pred             HHHHHHHHHHhhCCCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc
Confidence            34568999999999999999999999999999998888899999999999999999999985532     1334555554


Q ss_pred             CCC-C--ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC-----CCCh
Q 020071           85 SDD-R--GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS-----KIIE  156 (331)
Q Consensus        85 ~~~-~--~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~-----~l~~  156 (331)
                      ... .  ....++..+..+..       .++.++|||    .+.+.++.|+..++.  ..+++|+++|...     .+.+
T Consensus       245 g~~~~G~~e~~l~~~~~~~~~-------~~~~iLfiD----~~~~~~~~L~~~l~~--~~v~~I~at~~~~~~~~~~~d~  311 (758)
T 3pxi_A          245 GTKYRGEFEDRLKKVMDEIRQ-------AGNIILFID----AAIDASNILKPSLAR--GELQCIGATTLDEYRKYIEKDA  311 (758)
T ss_dssp             --------CTTHHHHHHHHHT-------CCCCEEEEC----C--------CCCTTS--SSCEEEEECCTTTTHHHHTTCS
T ss_pred             cccccchHHHHHHHHHHHHHh-------cCCEEEEEc----CchhHHHHHHHHHhc--CCEEEEeCCChHHHHHHhhccH
Confidence            111 1  11234455544432       346799999    445678888888874  5688899888876     6899


Q ss_pred             hhhcccceeeecCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHHHhcC------CCHHHHHHHHHHH
Q 020071          157 PIQSRCAIVRFSRLSDEEILSRLMVVVQE----EKVPYVPEGLEAIIFTAD------GDMRQALNNLQAT  216 (331)
Q Consensus       157 ~l~sr~~~i~~~~~~~~~~~~~l~~~~~~----~~~~i~~~~~~~l~~~~~------g~~r~~~~~l~~~  216 (331)
                      ++++||..+.|++|+.++...+++.....    .++.++++++..++.++.      ..++.++..++.+
T Consensus       312 al~rRf~~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~ll~~a  381 (758)
T 3pxi_A          312 ALERRFQPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAIDLIDEA  381 (758)
T ss_dssp             HHHHSEEEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHHHHHHH
T ss_pred             HHHhhCcEEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHHHHHHH
Confidence            99999999999999999999999977655    678899999999888753      3567888888655

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.76  E-value=1.8e-18  Score=140.43  Aligned_cols=161  Identities=19%  Similarity=0.213  Sum_probs=115.3

Q ss_pred             CCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEE
Q 020071            7 SSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVME   81 (331)
Q Consensus         7 ~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~   81 (331)
                      .......+|.++|+|..|++++|++..+..+.+.+..+...+++|+||+|+|||++++.+++.+.+..     .+..++.
T Consensus         4 ~l~~~~~~l~~~~~~~~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~   83 (187)
T 2p65_A            4 ALEKYSRDLTALARAGKLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVS   83 (187)
T ss_dssp             CTTTTEEEHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEE
T ss_pred             HHHHHHHHHHHHHhccccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEE
Confidence            34556779999999999999999999999999999887767799999999999999999999985532     1334455


Q ss_pred             eecCCC----CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC---------HHHHHHHHHHHHHhcCCcEEEEee
Q 020071           82 LNASDD----RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT---------AGAQQALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus        82 ~~~~~~----~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~---------~~~~~~Ll~~le~~~~~~~~I~~~  148 (331)
                      +++...    .........+.........  .+++.+++|||+|.+.         .+..+.|...++.  ..+.+|+++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~~l~~~~~~--~~~~ii~~~  159 (187)
T 2p65_A           84 LDLSSLIAGAKYRGDFEERLKSILKEVQD--AEGQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLAR--GELRCIGAT  159 (187)
T ss_dssp             ECHHHHHHHCCSHHHHHHHHHHHHHHHHH--TTTSEEEEETTGGGGSSSSSSCTTSCCTHHHHHHHHHT--TCSCEEEEE
T ss_pred             EeHHHhhcCCCchhHHHHHHHHHHHHHHh--cCCceEEEEeCHHHhcccccccccchHHHHHHHHHHhc--CCeeEEEec
Confidence            443221    0111222222222111110  2346799999999986         4556777777765  457788888


Q ss_pred             CCCC-----CCChhhhcccceeeecCCC
Q 020071          149 NVSS-----KIIEPIQSRCAIVRFSRLS  171 (331)
Q Consensus       149 ~~~~-----~l~~~l~sr~~~i~~~~~~  171 (331)
                      +...     .+.+++++||..+.+++|+
T Consensus       160 ~~~~~~~~~~~~~~l~~R~~~i~i~~p~  187 (187)
T 2p65_A          160 TVSEYRQFIEKDKALERRFQQILVEQPS  187 (187)
T ss_dssp             CHHHHHHHTTTCHHHHHHEEEEECCSCC
T ss_pred             CHHHHHHHHhccHHHHHhcCcccCCCCC
Confidence            7653     6889999999999998875

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=99.76  E-value=1.5e-19  Score=155.95  Aligned_cols=204  Identities=19%  Similarity=0.229  Sum_probs=139.2

Q ss_pred             hcCCCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           18 KYRPTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        18 ~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      ++.+..|++++|++.+++.+...+..           ...+ +++|+||+|+|||++|+++++.+     ..+++.+++.
T Consensus         4 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~-----~~~~~~v~~~   78 (268)
T 2r62_A            4 EKPNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----HVPFFSMGGS   78 (268)
T ss_dssp             CCCCCCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH-----TCCCCCCCSC
T ss_pred             cCCCCCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh-----CCCEEEechH
Confidence            45677899999999999988877652           2333 38999999999999999999998     4455666554


Q ss_pred             CCC------ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH---------------HHHHHHHHHHHhc---CC
Q 020071           86 DDR------GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG---------------AQQALRRTMEIYS---NS  141 (331)
Q Consensus        86 ~~~------~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~---------------~~~~Ll~~le~~~---~~  141 (331)
                      +..      +...++..+..+..       ..+.+++|||+|.+...               .++.|+..++...   ..
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~a~~-------~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  151 (268)
T 2r62_A           79 SFIEMFVGLGASRVRDLFETAKK-------QAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAP  151 (268)
T ss_dssp             TTTTSCSSSCSSSSSTTHHHHHH-------SCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSC
T ss_pred             HHHHhhcchHHHHHHHHHHHHHh-------cCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCC
Confidence            321      11112222322222       13579999999998643               2455666666543   24


Q ss_pred             cEEEEeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHh
Q 020071          142 TRFALACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQATY  217 (331)
Q Consensus       142 ~~~I~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~~  217 (331)
                      +.+|+++|.+..+.+.+.+  |+ ..+.|++|+.++..++++..++..++. ++..++.+++.+.| ..+.+.+.++.+.
T Consensus       152 v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~-~~~~~~~la~~~~g~~g~dl~~l~~~a~  230 (268)
T 2r62_A          152 VIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLA-NDVNLQEVAKLTAGLAGADLANIINEAA  230 (268)
T ss_dssp             CEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCC-SSCCTTTTTSSSCSSCHHHHHHHHHHHH
T ss_pred             EEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCC-CccCHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            6788888888888889988  55 568999999999999998877544322 22235667777766 4556666665543


Q ss_pred             -----hCCCccchhhhhhhcCC
Q 020071          218 -----SGFRFVNQENVFKVCDQ  234 (331)
Q Consensus       218 -----~~~~~i~~~~v~~~~~~  234 (331)
                           .+...|+.+++.+++..
T Consensus       231 ~~a~~~~~~~i~~~~~~~a~~~  252 (268)
T 2r62_A          231 LLAGRNNQKEVRQQHLKEAVER  252 (268)
T ss_dssp             HTTSSSCCCSCCHHHHHTSCTT
T ss_pred             HHHHHhccCCcCHHHHHHHHHH
Confidence                 22457888888776654

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=99.75  E-value=1e-17  Score=144.75  Aligned_cols=178  Identities=16%  Similarity=0.224  Sum_probs=122.0

Q ss_pred             CCccccCHHHHHHHHH-------HHH---cCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC-C--h
Q 020071           24 VCDIVGNLDAVARLGI-------IAR---DGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR-G--I   90 (331)
Q Consensus        24 ~~~~ig~~~~~~~l~~-------~l~---~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-~--~   90 (331)
                      ...++|++..+..+..       .+.   .....+++|+||+|+|||++|+++++.+     +.+++.+++++.. +  .
T Consensus        32 ~~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~-----~~~~~~i~~~~~~~g~~~  106 (272)
T 1d2n_A           32 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES-----NFPFIKICSPDKMIGFSE  106 (272)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH-----TCSEEEEECGGGCTTCCH
T ss_pred             hcCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh-----CCCEEEEeCHHHhcCCch
Confidence            3467888766554433       444   2222348999999999999999999997     6677887765421 1  1


Q ss_pred             ----HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC----------CHHHHHHHHHHHHH---hcCCcEEEEeeCCCCC
Q 020071           91 ----DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM----------TAGAQQALRRTMEI---YSNSTRFALACNVSSK  153 (331)
Q Consensus        91 ----~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l----------~~~~~~~Ll~~le~---~~~~~~~I~~~~~~~~  153 (331)
                          ..++..+..+.       .....+++|||+|.+          .....+.|...++.   ++..+++|.++|.+..
T Consensus       107 ~~~~~~~~~~~~~~~-------~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~  179 (272)
T 1d2n_A          107 TAKCQAMKKIFDDAY-------KSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDV  179 (272)
T ss_dssp             HHHHHHHHHHHHHHH-------TSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHH
T ss_pred             HHHHHHHHHHHHHHH-------hcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhh
Confidence                12223332221       245789999999887          34455566666553   3345667777777665


Q ss_pred             CCh-hhhcc-cceeeecCCCH-HHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-----CHHHHHHHHHHHhh
Q 020071          154 IIE-PIQSR-CAIVRFSRLSD-EEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-----DMRQALNNLQATYS  218 (331)
Q Consensus       154 l~~-~l~sr-~~~i~~~~~~~-~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-----~~r~~~~~l~~~~~  218 (331)
                      +.+ .+.+| +..+.++|++. +++..++...    + .++++.+..+++.+.|     |+|.+++.++.+..
T Consensus       180 l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~----~-~~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~  247 (272)
T 1d2n_A          180 LQEMEMLNAFSTTIHVPNIATGEQLLEALELL----G-NFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQ  247 (272)
T ss_dssp             HHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH----T-CSCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTT
T ss_pred             cchhhhhcccceEEcCCCccHHHHHHHHHHhc----C-CCCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhh
Confidence            555 57788 57789998887 6676666542    2 5789999999999988     99999999998653

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=99.75  E-value=1.2e-17  Score=150.93  Aligned_cols=202  Identities=20%  Similarity=0.219  Sum_probs=136.0

Q ss_pred             ccccCHHHHHHHHHHHH----c-------------------------C-CCCeEEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           26 DIVGNLDAVARLGIIAR----D-------------------------G-NMPNLILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~----~-------------------------~-~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      .++||+++++.+...+.    .                         . ...+++|+||+|+|||++|+++++.+     
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l-----   96 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL-----   96 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT-----
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh-----
Confidence            58999999998887762    1                         1 12359999999999999999999998     


Q ss_pred             CCceEEeecCCCCCh----HhHHHHHHHHHhc-ccCCCCCCceEEEEeCCCCCCHH--------------HHHHHHHHHH
Q 020071           76 REAVMELNASDDRGI----DVVRNKIKMFAQK-KVTLPPGKHKVVVLDEADSMTAG--------------AQQALRRTME  136 (331)
Q Consensus        76 ~~~~~~~~~~~~~~~----~~i~~~i~~~~~~-~~~~~~~~~~vviide~d~l~~~--------------~~~~Ll~~le  136 (331)
                      +.+++.+++......    ......+...... ........+.+++|||++.+...              .++.|+++|+
T Consensus        97 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le  176 (376)
T 1um8_A           97 DIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVE  176 (376)
T ss_dssp             TCCEEEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHH
T ss_pred             CCCEEEecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhh
Confidence            566777776543210    1111222222111 10000124689999999999887              8999999999


Q ss_pred             Hhc---------------------CCcEEEEeeCC-----------------------------------------CCCC
Q 020071          137 IYS---------------------NSTRFALACNV-----------------------------------------SSKI  154 (331)
Q Consensus       137 ~~~---------------------~~~~~I~~~~~-----------------------------------------~~~l  154 (331)
                      +..                     .++.+|+++|.                                         ...+
T Consensus       177 ~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~  256 (376)
T 1um8_A          177 GSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGL  256 (376)
T ss_dssp             CCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTC
T ss_pred             ccceecccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCC
Confidence            541                     34567776651                                         1135


Q ss_pred             Chhhhccc-ceeeecCCCHHHHHHHHHH----H-------HH--hcCCCCCHHHHHHHHHhcC---CCHHHHHHHHHHHh
Q 020071          155 IEPIQSRC-AIVRFSRLSDEEILSRLMV----V-------VQ--EEKVPYVPEGLEAIIFTAD---GDMRQALNNLQATY  217 (331)
Q Consensus       155 ~~~l~sr~-~~i~~~~~~~~~~~~~l~~----~-------~~--~~~~~i~~~~~~~l~~~~~---g~~r~~~~~l~~~~  217 (331)
                      .+.+.+|+ .++.|+|++.+++..++..    .       ..  ..++.++++++++|++.+.   |+.|.+.+.++.+.
T Consensus       257 ~p~l~~R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~le~~~  336 (376)
T 1um8_A          257 IPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFC  336 (376)
T ss_dssp             CHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHH
T ss_pred             ChHHhcCCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHHHHHHHHHHhcccccCcHHHHHHHHHHH
Confidence            68899998 7789999999999998862    1       11  1245689999999999865   99999999998653


Q ss_pred             h-----C------CCccchhhhhhhc
Q 020071          218 S-----G------FRFVNQENVFKVC  232 (331)
Q Consensus       218 ~-----~------~~~i~~~~v~~~~  232 (331)
                      .     .      ...||.+++.+..
T Consensus       337 ~~~~~~~~~~~~~~~~i~~~~v~~~~  362 (376)
T 1um8_A          337 LDIMFDLPKLKGSEVRITKDCVLKQA  362 (376)
T ss_dssp             HHHHHTGGGGTTSEEEECHHHHTTSS
T ss_pred             HHHHhhccCCCCCEEEEeHHHhcCCC
Confidence            1     1      1147777776643

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.74  E-value=3.1e-17  Score=161.15  Aligned_cols=183  Identities=18%  Similarity=0.250  Sum_probs=136.8

Q ss_pred             CccccCHHHHHHHHHHHHcCC-------CC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH--hH
Q 020071           25 CDIVGNLDAVARLGIIARDGN-------MP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID--VV   93 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~~-------~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~--~i   93 (331)
                      .+++|++.++..+...+....       .|  +++|+||+|+|||++|+++++.+.+.  ..+++.++++......  ..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~--~~~~i~i~~s~~~~~~~~~~  568 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD--EESMIRIDMSEYMEKHSTSG  568 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC--TTCEEEEEGGGGCSSCCCC-
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC--CcceEEEechhccccccccc
Confidence            468999999998888876421       12  59999999999999999999998544  4567888876542211  00


Q ss_pred             HHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH-----------hcCCcEEEEeeCCCCC---------
Q 020071           94 RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI-----------YSNSTRFALACNVSSK---------  153 (331)
Q Consensus        94 ~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~-----------~~~~~~~I~~~~~~~~---------  153 (331)
                      ........       ..++.|++|||++.++.+.++.|++++++           ...++++|++||....         
T Consensus       569 ~~l~~~~~-------~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~  641 (758)
T 3pxi_A          569 GQLTEKVR-------RKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGEL  641 (758)
T ss_dssp             --CHHHHH-------HCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHH
T ss_pred             chhhHHHH-------hCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHH
Confidence            11111111       12367999999999999999999999997           3457899999986443         


Q ss_pred             ---CChhhhccc-ceeeecCCCHHHHHHHHHHHHHh---------cCCCCCHHHHHHHHHh---cCCCHHHHHHHHHHH
Q 020071          154 ---IIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQE---------EKVPYVPEGLEAIIFT---ADGDMRQALNNLQAT  216 (331)
Q Consensus       154 ---l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~---------~~~~i~~~~~~~l~~~---~~g~~r~~~~~l~~~  216 (331)
                         +.+.+.+|+ .++.|+|++.+++..++...+..         ..+.++++++++|++.   ..|+.|.+.+.++..
T Consensus       642 ~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~i~~~  720 (758)
T 3pxi_A          642 KRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKH  720 (758)
T ss_dssp             HHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHGGGCCTTTTTTTHHHHHHHH
T ss_pred             HhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEECHHHHHHHHHhCCCCCCCChHHHHHHHHH
Confidence               789999999 78899999999999988776653         2456899999999875   257888888888754

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.72  E-value=9e-17  Score=158.01  Aligned_cols=180  Identities=18%  Similarity=0.209  Sum_probs=135.2

Q ss_pred             CccccCHHHHHHHHHHHHcC--------CC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC------
Q 020071           25 CDIVGNLDAVARLGIIARDG--------NM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG------   89 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~--------~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~------   89 (331)
                      .+++|+++++..+...+...        +. .+++|+||+|+|||++|+++++.+     +.+++.++++....      
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l-----~~~~~~i~~s~~~~~~~~~~  532 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVSR  532 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH-----TCEEEEEEGGGCSSSSCCSS
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh-----cCCEEEEechhhcchhhHhh
Confidence            46899999999887776532        12 259999999999999999999998     45677777654311      


Q ss_pred             --------h--HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEee
Q 020071           90 --------I--DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALAC  148 (331)
Q Consensus        90 --------~--~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~  148 (331)
                              .  +........+.       ..++.|++|||++.++++.++.|+++|++..           .++++|+++
T Consensus       533 l~g~~~g~~g~~~~~~l~~~~~-------~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~ts  605 (758)
T 1r6b_X          533 LIGAPPGYVGFDQGGLLTDAVI-------KHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTT  605 (758)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHHH-------HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEE
T ss_pred             hcCCCCCCcCccccchHHHHHH-------hCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEec
Confidence                    0  01011111111       2347899999999999999999999999742           467789998


Q ss_pred             CCCC-------------------------CCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhc---------CCCCCHH
Q 020071          149 NVSS-------------------------KIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEE---------KVPYVPE  193 (331)
Q Consensus       149 ~~~~-------------------------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~---------~~~i~~~  193 (331)
                      |...                         .+.+.+.+|+ .++.|+|++.+++..++...+.+.         .+.++++
T Consensus       606 N~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~  685 (758)
T 1r6b_X          606 NAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQE  685 (758)
T ss_dssp             CSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECHH
T ss_pred             CcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCCcEEEeCHH
Confidence            8643                         5678999999 678999999999999998877532         3468999


Q ss_pred             HHHHHHHhc---CCCHHHHHHHHHHH
Q 020071          194 GLEAIIFTA---DGDMRQALNNLQAT  216 (331)
Q Consensus       194 ~~~~l~~~~---~g~~r~~~~~l~~~  216 (331)
                      ++++|++..   +++.|.+.+.++..
T Consensus       686 a~~~l~~~~~~~~~g~R~l~~~i~~~  711 (758)
T 1r6b_X          686 ARNWLAEKGYDRAMGARPMARVIQDN  711 (758)
T ss_dssp             HHHHHHHHHCBTTTBTTTHHHHHHHH
T ss_pred             HHHHHHHhCCCcCCCchHHHHHHHHH
Confidence            999999876   45578888877654

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=99.71  E-value=6.8e-17  Score=149.81  Aligned_cols=187  Identities=19%  Similarity=0.180  Sum_probs=136.5

Q ss_pred             hhcCCCCCCccccCHHHHHHHHHHHHc------------CCC-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           17 EKYRPTKVCDIVGNLDAVARLGIIARD------------GNM-PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        17 ~~~~p~~~~~~ig~~~~~~~l~~~l~~------------~~~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      +.+++..|++++|++..++.+...+..            ... .++|||||+|+|||++|+++++.+     +.+++.++
T Consensus       196 ~~~~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~-----~~~fv~vn  270 (489)
T 3hu3_A          196 ESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLIN  270 (489)
T ss_dssp             HHHTCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC-----SSEEEEEE
T ss_pred             cccCCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh-----CCCEEEEE
Confidence            466788999999999999999888763            122 349999999999999999999988     67888888


Q ss_pred             cCCC----CC--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHHh--cCCcEE
Q 020071           84 ASDD----RG--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEIY--SNSTRF  144 (331)
Q Consensus        84 ~~~~----~~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~~--~~~~~~  144 (331)
                      +.+.    .+  ...++..+..+.       .+.+.++||||+|.+..           ..++.|++.|+..  +.++++
T Consensus       271 ~~~l~~~~~g~~~~~~~~~f~~A~-------~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~v  343 (489)
T 3hu3_A          271 GPEIMSKLAGESESNLRKAFEEAE-------KNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  343 (489)
T ss_dssp             HHHHHTSCTTHHHHHHHHHHHHHH-------HTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEE
T ss_pred             chHhhhhhcchhHHHHHHHHHHHH-------hcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEE
Confidence            6432    11  112333333322       23357999999976642           5678899999853  457788


Q ss_pred             EEeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH
Q 020071          145 ALACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT  216 (331)
Q Consensus       145 I~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~  216 (331)
                      |.+||.+..+.+.+++  |+ ..+.|++|+.++..++++.+++..... .+..+..++..+.| +.+.+.++++.+
T Consensus       344 IaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~-~~~~l~~la~~t~g~s~~dL~~L~~~A  418 (489)
T 3hu3_A          344 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCSEA  418 (489)
T ss_dssp             EEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHH
T ss_pred             EEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCc-chhhHHHHHHHccCCcHHHHHHHHHHH
Confidence            8899999899999998  55 358999999999999999887655433 22346778888877 444455554443

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=99.70  E-value=5.8e-17  Score=160.90  Aligned_cols=184  Identities=17%  Similarity=0.209  Sum_probs=139.2

Q ss_pred             CCccccCHHHHHHHHHHHHcCC--------C-CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH-
Q 020071           24 VCDIVGNLDAVARLGIIARDGN--------M-PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV-   93 (331)
Q Consensus        24 ~~~~ig~~~~~~~l~~~l~~~~--------~-~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i-   93 (331)
                      +.+++|++.++..+...+....        . .+++|+||+|+|||++|+++++.+.+.  ..+++.++++........ 
T Consensus       557 ~~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~--~~~~i~i~~~~~~~~~~~s  634 (854)
T 1qvr_A          557 HKRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHAVS  634 (854)
T ss_dssp             HHHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS--GGGEEEECTTTCCSSGGGG
T ss_pred             hcccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC--CCcEEEEechhccchhHHH
Confidence            3568999999999888876532        1 248999999999999999999998764  456788887654221100 


Q ss_pred             ---------------HHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEe
Q 020071           94 ---------------RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALA  147 (331)
Q Consensus        94 ---------------~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~  147 (331)
                                     ........       ...+.++||||++.++.+.++.|++++++..           .++++|++
T Consensus       635 ~l~g~~~~~~G~~~~g~l~~~~~-------~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~t  707 (854)
T 1qvr_A          635 RLIGAPPGYVGYEEGGQLTEAVR-------RRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILT  707 (854)
T ss_dssp             GC--------------CHHHHHH-------HCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEE
T ss_pred             HHcCCCCCCcCccccchHHHHHH-------hCCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEe
Confidence                           11111111       1236799999999999999999999999753           36678888


Q ss_pred             eCC--------------------------CCCCChhhhccc-ceeeecCCCHHHHHHHHHHHHHh-------c--CCCCC
Q 020071          148 CNV--------------------------SSKIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQE-------E--KVPYV  191 (331)
Q Consensus       148 ~~~--------------------------~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~-------~--~~~i~  191 (331)
                      ||.                          ...+.+.+.+|+ .++.|.|++.+++..++...+.+       .  .+.++
T Consensus       708 sn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~~~~~~~~~~~~~~~~  787 (854)
T 1qvr_A          708 SNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELT  787 (854)
T ss_dssp             CCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEEC
T ss_pred             cCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHHHHHHHHhCCceEEEC
Confidence            885                          234678889998 67799999999999998776652       1  34689


Q ss_pred             HHHHHHHHHhcC---CCHHHHHHHHHHH
Q 020071          192 PEGLEAIIFTAD---GDMRQALNNLQAT  216 (331)
Q Consensus       192 ~~~~~~l~~~~~---g~~r~~~~~l~~~  216 (331)
                      +++++.|++++-   |++|.+.+.++..
T Consensus       788 ~~a~~~L~~~~~~~~gn~R~L~~~i~~~  815 (854)
T 1qvr_A          788 EAAKDFLAERGYDPVFGARPLRRVIQRE  815 (854)
T ss_dssp             HHHHHHHHHHHCBTTTBTSTHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCChHHHHHHHHHH
Confidence            999999999764   9999999998765

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.70  E-value=1.3e-16  Score=152.51  Aligned_cols=217  Identities=20%  Similarity=0.228  Sum_probs=147.5

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC-----
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR-----   88 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-----   88 (331)
                      ....+|+|..|++++|++++++.+...+..+.  +++|+||+|+|||++|+.++..+.+.......+..+..+..     
T Consensus        30 ~~~~~~rp~~l~~i~G~~~~l~~l~~~i~~g~--~vll~Gp~GtGKTtlar~ia~~l~~~~~~~~~~~~~~~~~~~p~i~  107 (604)
T 3k1j_A           30 TEEIEVPEKLIDQVIGQEHAVEVIKTAANQKR--HVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMPRIK  107 (604)
T ss_dssp             GGGSCCCSSHHHHCCSCHHHHHHHHHHHHTTC--CEEEECCTTSSHHHHHHHHHHTSCCSSCEEEEEECCTTCTTSCEEE
T ss_pred             cCcccccccccceEECchhhHhhccccccCCC--EEEEEeCCCCCHHHHHHHHhccCCcccCCeEEEeCCcccccCCcEE
Confidence            35679999999999999999999999999885  69999999999999999999988654311111111100000     


Q ss_pred             -----ChHhH--------------------------------------------------HHHHHHHHhc-----cc---
Q 020071           89 -----GIDVV--------------------------------------------------RNKIKMFAQK-----KV---  105 (331)
Q Consensus        89 -----~~~~i--------------------------------------------------~~~i~~~~~~-----~~---  105 (331)
                           ....+                                                  .+.+......     ..   
T Consensus       108 ~~p~g~~~~~~e~~~~~~~~~~~~r~~~~~~~~~~~~~nl~v~~~~~~~~~~v~~~~~~~~~L~G~~~~~~~~~g~~~~g  187 (604)
T 3k1j_A          108 TVPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGDVRHDPFQSGGLGTP  187 (604)
T ss_dssp             EEETTHHHHHHHHHHHHHHHHTCC-----------CCCEEEECCTTCSSCCEEECTTCCHHHHHCEECCCCC----CCCC
T ss_pred             EEecchHHHHHHHHHHhhccchhhhhhcccccccccccceeeccccCCCCCEEEcCCCCHHhcCceEEechhhcCCcccc
Confidence                 00011                                                  1111000000     00   


Q ss_pred             --------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh---------------------cCCcEEEEeeCCC--CCC
Q 020071          106 --------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY---------------------SNSTRFALACNVS--SKI  154 (331)
Q Consensus       106 --------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~---------------------~~~~~~I~~~~~~--~~l  154 (331)
                              .+....++++||||++.+++..++.|++.|++.                     +.++++|+++|..  ..+
T Consensus       188 ~~~~i~~g~~~~a~~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~~~~~l  267 (604)
T 3k1j_A          188 AHERVEPGMIHRAHKGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDTVDKM  267 (604)
T ss_dssp             GGGGEECCHHHHTTTSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHHHHHHS
T ss_pred             ccccccCceeeecCCCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHHHHhhc
Confidence                    000124569999999999999999999999842                     2467899999875  678


Q ss_pred             Chhhhcccc----eeeec---CCCHHHHHHHHHHHHHhc-----CCCCCHHHHHHHHHhc---CC-------CHHHHHHH
Q 020071          155 IEPIQSRCA----IVRFS---RLSDEEILSRLMVVVQEE-----KVPYVPEGLEAIIFTA---DG-------DMRQALNN  212 (331)
Q Consensus       155 ~~~l~sr~~----~i~~~---~~~~~~~~~~l~~~~~~~-----~~~i~~~~~~~l~~~~---~g-------~~r~~~~~  212 (331)
                      .+++.+||.    .+.|+   +...+.+..++...++..     ...++++++..|++++   .|       ++|.+.+.
T Consensus       268 ~~~l~~R~~v~~i~i~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ls~eAl~~Li~~~~r~~g~r~~l~~~~R~l~~l  347 (604)
T 3k1j_A          268 HPALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGI  347 (604)
T ss_dssp             CHHHHHHHHHHSEEEECCSEEECCHHHHHHHHHHHHHHHHHHCSSCCBBHHHHHHHHHHHHHTTCSTTEEECCHHHHHHH
T ss_pred             CHHHHHHhhccceEeeccccccCCHHHHHHHHHHHHHHHhhccCcccCCHHHHHHHHHHHhhhhccccccccCHHHHHHH
Confidence            999999995    34543   334556666665554432     2578999999998765   45       69999999


Q ss_pred             HHHHh-----hCCCccchhhhhhhc
Q 020071          213 LQATY-----SGFRFVNQENVFKVC  232 (331)
Q Consensus       213 l~~~~-----~~~~~i~~~~v~~~~  232 (331)
                      ++.+.     .+...|+.+++.++.
T Consensus       348 lr~A~~~A~~~~~~~I~~edv~~A~  372 (604)
T 3k1j_A          348 VRAAGDIAVKKGKKYVEREDVIEAV  372 (604)
T ss_dssp             HHHHHHHHHHTTCSSBCHHHHHHHH
T ss_pred             HHHHHHHHHhcCcccccHHHHHHHH
Confidence            87542     355678888887754

>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=99.70  E-value=1.3e-15  Score=139.25  Aligned_cols=213  Identities=20%  Similarity=0.185  Sum_probs=139.3

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHH-Hc---C---CCCeEEE--eCCCCccHHHHHHHHHHHhcCC----CCCCceEE
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIA-RD---G---NMPNLIL--AGPPGTGKTTSILALAHELLGP----NYREAVME   81 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l-~~---~---~~~~~ll--~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~   81 (331)
                      +...|.|   ++++|++..++.+...+ ..   +   ...++++  +||+|+|||++++.+++.+.+.    +.+..++.
T Consensus        15 ~~~~~~p---~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~   91 (412)
T 1w5s_A           15 FDENYIP---PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAY   91 (412)
T ss_dssp             GSTTCCC---SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCccCC---CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEE
Confidence            3345555   67899999999888877 42   3   3334799  9999999999999999887431    11234566


Q ss_pred             eecCCCCChHh-HHHHHHHHHhc-----------------ccCCCCCCceEEEEeCCCCCC------HHHHHHHHHHHHH
Q 020071           82 LNASDDRGIDV-VRNKIKMFAQK-----------------KVTLPPGKHKVVVLDEADSMT------AGAQQALRRTMEI  137 (331)
Q Consensus        82 ~~~~~~~~~~~-i~~~i~~~~~~-----------------~~~~~~~~~~vviide~d~l~------~~~~~~Ll~~le~  137 (331)
                      +++........ +...+......                 .+. ..+++.+|||||+|.+.      .+....|++.+++
T Consensus        92 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~-~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~  170 (412)
T 1w5s_A           92 VNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLY-VENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEE  170 (412)
T ss_dssp             EEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHH-HHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHH-hcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHh
Confidence            66533222211 11111111000                 000 01346799999999874      3556667777776


Q ss_pred             hc-----CCcEEEEeeCCCC---CCC---hhhhccc-ceeeecCCCHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHhcC
Q 020071          138 YS-----NSTRFALACNVSS---KII---EPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEK--VPYVPEGLEAIIFTAD  203 (331)
Q Consensus       138 ~~-----~~~~~I~~~~~~~---~l~---~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~--~~i~~~~~~~l~~~~~  203 (331)
                      .+     ..+.+|++++...   .+.   +.+.+++ ..+.|+|++.+++.+++..++...+  ..+++++++.+++.++
T Consensus       171 ~~~~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~  250 (412)
T 1w5s_A          171 IPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYG  250 (412)
T ss_dssp             SCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHC
T ss_pred             cccCCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHH
Confidence            54     5677888876543   222   4455553 3489999999999999988776432  3578999999999999


Q ss_pred             ------CCHHHHHHHHHHHh-----hCCCccchhhhhhh
Q 020071          204 ------GDMRQALNNLQATY-----SGFRFVNQENVFKV  231 (331)
Q Consensus       204 ------g~~r~~~~~l~~~~-----~~~~~i~~~~v~~~  231 (331)
                            |+++.+.+.++.+.     .+...++.+++...
T Consensus       251 ~~~~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~  289 (412)
T 1w5s_A          251 EDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKA  289 (412)
T ss_dssp             GGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHH
T ss_pred             HhccCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHH
Confidence                  99999999887542     23345666666543

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.69  E-value=3e-16  Score=145.22  Aligned_cols=207  Identities=18%  Similarity=0.204  Sum_probs=140.9

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      |.+. .+.+|++++|+++++..+...+..           ...| +++|+||+|+|||+++++++..+     ..+++.+
T Consensus        22 ~~~~-~~~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~-----~~~~i~i   95 (499)
T 2dhr_A           22 LTEA-PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITA   95 (499)
T ss_dssp             ECSC-CCCCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT-----TCCEEEE
T ss_pred             eccC-CCCCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEE
Confidence            4444 677999999999999988777542           1233 39999999999999999999988     5678888


Q ss_pred             ecCCCCC--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHh--cCCcEE
Q 020071           83 NASDDRG--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIY--SNSTRF  144 (331)
Q Consensus        83 ~~~~~~~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~--~~~~~~  144 (331)
                      ++.+...  .......+....+...   ...+.+++|||+|.+..              ...+.|+..|+..  ...+++
T Consensus        96 ~g~~~~~~~~g~~~~~v~~lfq~a~---~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viv  172 (499)
T 2dhr_A           96 SGSDFVEMFVGVGAARVRDLFETAK---RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVV  172 (499)
T ss_dssp             EGGGGTSSCTTHHHHHHHHHTTTSS---SSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEE
T ss_pred             ehhHHHHhhhhhHHHHHHHHHHHHH---hcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEE
Confidence            8765321  1222223333332221   12357999999987632              2234555555432  234567


Q ss_pred             EEeeCCCCCCChhhhccc---ceeeecCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCH-HHHHHHHHHHh--
Q 020071          145 ALACNVSSKIIEPIQSRC---AIVRFSRLSDEEILSRLMVVVQEEKVPYVPE-GLEAIIFTADGDM-RQALNNLQATY--  217 (331)
Q Consensus       145 I~~~~~~~~l~~~l~sr~---~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g~~-r~~~~~l~~~~--  217 (331)
                      +.++|.+..+.+++.+++   ..+.+++|+.++..++++..++  ++.++++ .+..++..+.|+. +.+.+.++.++  
T Consensus       173 iAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~--~~~l~~dv~l~~lA~~t~G~~gadL~~lv~~Aa~~  250 (499)
T 2dhr_A          173 MAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAALL  250 (499)
T ss_dssp             EECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTS--SSCCCCSSTTHHHHTTSCSCCHHHHHHHHHHHHHH
T ss_pred             EEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence            777888888888998853   4689999999999999876553  3455544 3788999998877 77777776543  


Q ss_pred             ---hCCCccchhhhhhhc
Q 020071          218 ---SGFRFVNQENVFKVC  232 (331)
Q Consensus       218 ---~~~~~i~~~~v~~~~  232 (331)
                         .+...|+.+++.+.+
T Consensus       251 A~~~~~~~It~~dl~~al  268 (499)
T 2dhr_A          251 AAREGRRKITMKDLEEAA  268 (499)
T ss_dssp             HTTTCCSSCCSHHHHHHH
T ss_pred             HHHhCCCccCHHHHHHHH
Confidence               234578888876543

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=99.67  E-value=2.4e-15  Score=128.47  Aligned_cols=206  Identities=18%  Similarity=0.203  Sum_probs=134.0

Q ss_pred             hhcCCCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           17 EKYRPTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        17 ~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      ....+.+|++++|.++.+..+......           ...+ +++|+||+|+|||+++++++..+     ...++.+++
T Consensus         8 ~~~~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~-----~~~~i~~~~   82 (254)
T 1ixz_A            8 TEAPKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASG   82 (254)
T ss_dssp             CCCCSCCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEH
T ss_pred             cCCCCCCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh-----CCCEEEeeH
Confidence            345567999999999998877665432           1222 39999999999999999999987     455676665


Q ss_pred             CCCC--ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------H---HHHHHHHHHHHHhc--CCcEEEE
Q 020071           85 SDDR--GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------A---GAQQALRRTMEIYS--NSTRFAL  146 (331)
Q Consensus        85 ~~~~--~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~---~~~~~Ll~~le~~~--~~~~~I~  146 (331)
                      .+..  ........+....+...   .....++++||+|.+.           .   ...+.++..++...  ..+.++.
T Consensus        83 ~~~~~~~~~~~~~~i~~~~~~~~---~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a  159 (254)
T 1ixz_A           83 SDFVEMFVGVGAARVRDLFETAK---RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMA  159 (254)
T ss_dssp             HHHHHSCTTHHHHHHHHHHHHHT---TSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEE
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH---hcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEE
Confidence            3210  01111222222222221   1235799999997652           1   12345555555322  2345666


Q ss_pred             eeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCH-HHHHHHHHHHh----
Q 020071          147 ACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPE-GLEAIIFTADGDM-RQALNNLQATY----  217 (331)
Q Consensus       147 ~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g~~-r~~~~~l~~~~----  217 (331)
                      +++.+..+.+.+.+  |+ ..+.+++|+.++..++++..++  +..++++ .+..++..+.|+. +.+.+.++.++    
T Consensus       160 ~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~--~~~~~~~~~~~~la~~~~G~~~~dl~~~~~~a~~~a~  237 (254)
T 1ixz_A          160 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAA  237 (254)
T ss_dssp             EESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHT--TSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHH
T ss_pred             ccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHc--CCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence            78888889999988  44 4579999999999999987654  3444443 3788999998855 66777766542    


Q ss_pred             -hCCCccchhhhhhhc
Q 020071          218 -SGFRFVNQENVFKVC  232 (331)
Q Consensus       218 -~~~~~i~~~~v~~~~  232 (331)
                       .+...|+.+++.+++
T Consensus       238 ~~~~~~I~~~dl~~a~  253 (254)
T 1ixz_A          238 REGRRKITMKDLEEAA  253 (254)
T ss_dssp             HTTCSSBCHHHHHHHT
T ss_pred             HhcCCCcCHHHHHHHh
Confidence             234568888877643

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.64  E-value=1.5e-14  Score=125.26  Aligned_cols=203  Identities=19%  Similarity=0.209  Sum_probs=131.4

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      .+.+|++++|+++.+..+......           ...+ +++|+||+|+|||+++++++..+     ...++.+++.+.
T Consensus        35 ~~~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~-----~~~~i~~~~~~~  109 (278)
T 1iy2_A           35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASGSDF  109 (278)
T ss_dssp             CCCCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHH
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc-----CCCEEEecHHHH
Confidence            566899999999998887766542           1222 48999999999999999999987     455677665321


Q ss_pred             C--ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC-----------HHHHHHHHHHHHHh-----cCCcEEEEeeC
Q 020071           88 R--GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT-----------AGAQQALRRTMEIY-----SNSTRFALACN  149 (331)
Q Consensus        88 ~--~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~-----------~~~~~~Ll~~le~~-----~~~~~~I~~~~  149 (331)
                      .  ........+....+...   .....++++||+|.+.           ......+..++.+.     ...+.++.+++
T Consensus       110 ~~~~~~~~~~~i~~~~~~~~---~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~  186 (278)
T 1iy2_A          110 VEMFVGVGAARVRDLFETAK---RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATN  186 (278)
T ss_dssp             HHSTTTHHHHHHHHHHHHHH---TSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEES
T ss_pred             HHHHhhHHHHHHHHHHHHHH---hcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecC
Confidence            0  01111222222222211   1235799999997552           12233333333322     22345666788


Q ss_pred             CCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHH-HHHHHHHhcCCCH-HHHHHHHHHHh-----hC
Q 020071          150 VSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPE-GLEAIIFTADGDM-RQALNNLQATY-----SG  219 (331)
Q Consensus       150 ~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~-~~~~l~~~~~g~~-r~~~~~l~~~~-----~~  219 (331)
                      .+..+.+.+.+  |+ ..+.|++|+.++..++++..++.  ..++++ .+..++..+.|+. +.+.+.++.++     .+
T Consensus       187 ~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~--~~~~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~  264 (278)
T 1iy2_A          187 RPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG--KPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG  264 (278)
T ss_dssp             CTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTT--SCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             CchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHcc--CCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhC
Confidence            88889999988  44 46899999999999999877643  444443 3788999998866 56666666442     23


Q ss_pred             CCccchhhhhhhc
Q 020071          220 FRFVNQENVFKVC  232 (331)
Q Consensus       220 ~~~i~~~~v~~~~  232 (331)
                      ...|+.+++.+++
T Consensus       265 ~~~I~~~dl~~a~  277 (278)
T 1iy2_A          265 RRKITMKDLEEAA  277 (278)
T ss_dssp             CCSBCHHHHHHHT
T ss_pred             CCCcCHHHHHHHh
Confidence            4568888877643

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=99.64  E-value=4.6e-16  Score=139.97  Aligned_cols=186  Identities=23%  Similarity=0.287  Sum_probs=126.7

Q ss_pred             ccccCHHHHHHHHHHHH-------------cC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCCh
Q 020071           26 DIVGNLDAVARLGIIAR-------------DG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGI   90 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~-------------~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   90 (331)
                      .++|++.+++.+...+.             ..  ...+++|+||||+|||++|+++++.+     +.+++.+++......
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~-----~~~~~~~~~~~l~~~   90 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL-----DVPFTMADATTLTEA   90 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHHTTC
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCEEEechHHhccc
Confidence            47999999999888873             11  22349999999999999999999998     677888887543221


Q ss_pred             Hh----HHHHHHHHHhcc-cCCCCCCceEEEEeCCCCCCHH--------------HHHHHHHHHHHh-------------
Q 020071           91 DV----VRNKIKMFAQKK-VTLPPGKHKVVVLDEADSMTAG--------------AQQALRRTMEIY-------------  138 (331)
Q Consensus        91 ~~----i~~~i~~~~~~~-~~~~~~~~~vviide~d~l~~~--------------~~~~Ll~~le~~-------------  138 (331)
                      ..    ....+....... .......+.++||||+|.++..              .++.|++.|+..             
T Consensus        91 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~  170 (363)
T 3hws_A           91 GYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHP  170 (363)
T ss_dssp             HHHHHHHTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC-------------
T ss_pred             ccccccHHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccC
Confidence            11    112222221111 0000124679999999988765              899999999921             


Q ss_pred             --------cCCcEEEEeeCCC----------CC-----------------------------------CChhhhccccee
Q 020071          139 --------SNSTRFALACNVS----------SK-----------------------------------IIEPIQSRCAIV  165 (331)
Q Consensus       139 --------~~~~~~I~~~~~~----------~~-----------------------------------l~~~l~sr~~~i  165 (331)
                              ..+..||++++..          .+                                   +.+.+.+|+..+
T Consensus       171 ~~~~~~i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~R~~~~  250 (363)
T 3hws_A          171 QQEFLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIGRLPVV  250 (363)
T ss_dssp             ---CCCCCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHTTCCEE
T ss_pred             CCceEEEECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhcccCee
Confidence                    1234455555532          11                                   678899998776


Q ss_pred             -eecCCCHHHHHHHHHH----HH-------HhcC--CCCCHHHHHHHHHh---cCCCHHHHHHHHHHH
Q 020071          166 -RFSRLSDEEILSRLMV----VV-------QEEK--VPYVPEGLEAIIFT---ADGDMRQALNNLQAT  216 (331)
Q Consensus       166 -~~~~~~~~~~~~~l~~----~~-------~~~~--~~i~~~~~~~l~~~---~~g~~r~~~~~l~~~  216 (331)
                       .|.|++.+++.+++..    ..       ...+  +.+++++++.|++.   ..++.|.+.+.++.+
T Consensus       251 ~~~~pl~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~  318 (363)
T 3hws_A          251 ATLNELSEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAA  318 (363)
T ss_dssp             EECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHH
T ss_pred             eecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHH
Confidence             5999999998888764    21       2223  45799999999965   357788888888765

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.61  E-value=5.5e-15  Score=143.22  Aligned_cols=171  Identities=22%  Similarity=0.248  Sum_probs=125.3

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc-----------C-CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD-----------G-NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      ...|+|+.|.++.++.|++.+.-           | ..| ++|||||||||||++|+++++++     +.+++.+++++.
T Consensus       200 ~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el-----g~~~~~v~~~~l  274 (806)
T 3cf2_A          200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPEI  274 (806)
T ss_dssp             SCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT-----TCEEEEEEHHHH
T ss_pred             CCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh-----CCeEEEEEhHHh
Confidence            45899999999999988887642           2 233 39999999999999999999988     778888887543


Q ss_pred             C----C--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHHhc--CCcEEEEee
Q 020071           88 R----G--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEIYS--NSTRFALAC  148 (331)
Q Consensus        88 ~----~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~~~--~~~~~I~~~  148 (331)
                      .    +  ...+++.+..+.       ...+.||||||+|.+..           ...+.|+..|+...  .++.+|.+|
T Consensus       275 ~sk~~gese~~lr~lF~~A~-------~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaT  347 (806)
T 3cf2_A          275 MSKLAGESESNLRKAFEEAE-------KNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAAT  347 (806)
T ss_dssp             HSSCTTHHHHHHHHHHHHHT-------TSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEEC
T ss_pred             hcccchHHHHHHHHHHHHHH-------HcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEec
Confidence            1    1  123444443332       23478999999998842           24567777787543  457788889


Q ss_pred             CCCCCCChhhhc--ccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC
Q 020071          149 NVSSKIIEPIQS--RCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG  204 (331)
Q Consensus       149 ~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g  204 (331)
                      |.++.+.+++++  |+. .+.++.|+..+..++++..++..... ++..+..++..+.|
T Consensus       348 N~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~-~dvdl~~lA~~T~G  405 (806)
T 3cf2_A          348 NRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHG  405 (806)
T ss_dssp             SSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEEC-TTCCHHHHHHHCCS
T ss_pred             CChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCC-cccCHHHHHHhcCC
Confidence            999999999998  764 58999999999999998765443221 22346788888765

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.60  E-value=5.3e-15  Score=115.17  Aligned_cols=132  Identities=15%  Similarity=0.148  Sum_probs=95.4

Q ss_pred             ccccCHHHHHHHHHHHHc--CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc
Q 020071           26 DIVGNLDAVARLGIIARD--GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK  103 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  103 (331)
                      +++|++..+..+.+.+..  ....+++|+||+|+|||++|+++++.....  +.+++ +++............+..    
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~--~~~~v-~~~~~~~~~~~~~~~~~~----   74 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNA--QGEFV-YRELTPDNAPQLNDFIAL----   74 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTT--TSCCE-EEECCTTTSSCHHHHHHH----
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCcc--CCCEE-EECCCCCcchhhhcHHHH----
Confidence            688999999988887754  233359999999999999999999875332  44667 777655332222222221    


Q ss_pred             ccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC-------CCCChhhhccc--ceeeecCC
Q 020071          104 KVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS-------SKIIEPIQSRC--AIVRFSRL  170 (331)
Q Consensus       104 ~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~-------~~l~~~l~sr~--~~i~~~~~  170 (331)
                            ....+++|||+|.++.+.+..|+.+++..+.++++|+++|..       ..+.+.+..|+  ..+.++|+
T Consensus        75 ------a~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~~~~~~~~~~~~~~L~~rl~~~~i~lPpL  144 (145)
T 3n70_A           75 ------AQGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTSLVELAASNHIIAELYYCFAMTQIACLPL  144 (145)
T ss_dssp             ------HTTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSCHHHHHHHSCCCHHHHHHHHHHEEECCCC
T ss_pred             ------cCCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcCHHHHHHcCCCCHHHHHHhcCCEEeCCCC
Confidence                  124699999999999999999999998878889999999864       34566777774  34666665

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.59  E-value=3.3e-14  Score=131.77  Aligned_cols=199  Identities=18%  Similarity=0.167  Sum_probs=130.2

Q ss_pred             CccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHH--HHHHH-H
Q 020071           25 CDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRN--KIKMF-A  101 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~--~i~~~-~  101 (331)
                      ..++|+++++..+...+..+.  |++|+||||+|||++|+++++.+..   ..++..+++.-. ....+..  ..... .
T Consensus        22 ~~ivGq~~~i~~l~~al~~~~--~VLL~GpPGtGKT~LAraLa~~l~~---~~~f~~~~~~~~-t~~dL~G~~~~~~~~~   95 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQN---ARAFEYLMTRFS-TPEEVFGPLSIQALKD   95 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTC--EEEEECCSSSSHHHHHHHGGGGBSS---CCEEEEECCTTC-CHHHHHCCBC------
T ss_pred             hhhHHHHHHHHHHHHHHhcCC--eeEeecCchHHHHHHHHHHHHHHhh---hhHHHHHHHhcC-CHHHhcCcccHHHHhh
Confidence            368999999999988888775  7999999999999999999998732   223333333211 1111100  00000 0


Q ss_pred             hcccC-CCCC---CceEEEEeCCCCCCHHHHHHHHHHHHHhc---------CCc-EEEEeeCCCC---CCChhhhcccce
Q 020071          102 QKKVT-LPPG---KHKVVVLDEADSMTAGAQQALRRTMEIYS---------NST-RFALACNVSS---KIIEPIQSRCAI  164 (331)
Q Consensus       102 ~~~~~-~~~~---~~~vviide~d~l~~~~~~~Ll~~le~~~---------~~~-~~I~~~~~~~---~l~~~l~sr~~~  164 (331)
                      ...+. ...+   ...+++|||+++++++.++.|+..|++..         ... .+|++||...   ...+++.+|+..
T Consensus        96 ~g~~~~~~~g~l~~~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~ATN~lpe~~~~~~aLldRF~~  175 (500)
T 3nbx_X           96 EGRYERLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERQFRNGAHVEKIPMRLLVAASNELPEADSSLEALYDRMLI  175 (500)
T ss_dssp             ----CBCCTTSGGGCSEEEEESGGGCCHHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEESSCCCTTCTTHHHHTTCCE
T ss_pred             chhHHhhhccCCCcceeeeHHhHhhhcHHHHHHHHHHHHHHhccCCCCcCCcchhhhhhccccCCCccccHHHHHHHHHH
Confidence            00010 0011   34589999999999999999999998421         112 3477777532   245689999744


Q ss_pred             -eeecCCCH-HHHHHHHHHHH-----------------------HhcCCCCCHHHHHHHHHhc----------CCCHHHH
Q 020071          165 -VRFSRLSD-EEILSRLMVVV-----------------------QEEKVPYVPEGLEAIIFTA----------DGDMRQA  209 (331)
Q Consensus       165 -i~~~~~~~-~~~~~~l~~~~-----------------------~~~~~~i~~~~~~~l~~~~----------~g~~r~~  209 (331)
                       +.+++|+. ++...++....                       ...++.++++.++++++..          +.+.|.+
T Consensus       176 ~i~v~~p~~~ee~~~IL~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~v~v~d~v~e~i~~l~~~lr~~r~~~~iS~R~~  255 (500)
T 3nbx_X          176 RLWLDKVQDKANFRSMLTSQQDENDNPVPDALQVTDEEYERWQKEIGEITLPDHVFELIFMLRQQLDKLPDAPYVSDRRW  255 (500)
T ss_dssp             EEECCSCCCHHHHHHHHTCCCCTTSCCSCTTTSBCHHHHHHHHHHHTTCBCCHHHHHHHHHHHHHHHHCSSSCCCCHHHH
T ss_pred             HHHHHHhhhhhhHHHHHhcccccCCCCCCccceecHHHHHHHHhcCCcccCchHHHHHHHHHHHHhhcCCCCCccchhHH
Confidence             68888886 55666665432                       1236778999999988766          5688887


Q ss_pred             HHHHHHH---h--hCCCccchhhhh
Q 020071          210 LNNLQAT---Y--SGFRFVNQENVF  229 (331)
Q Consensus       210 ~~~l~~~---~--~~~~~i~~~~v~  229 (331)
                      ...+..+   +  .+...++.+++.
T Consensus       256 ~~llr~A~A~A~l~gr~~Vt~eDv~  280 (500)
T 3nbx_X          256 KKAIRLLQASAFFSGRSAVAPVDLI  280 (500)
T ss_dssp             HHHHHHHHHHHHHTTCSBCCGGGGG
T ss_pred             HHHHHHHHHHHhhcCCccccchHHH
Confidence            7776533   2  567788999887

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.59  E-value=6.3e-14  Score=122.06  Aligned_cols=148  Identities=13%  Similarity=0.155  Sum_probs=97.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC----CC--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD----RG--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADS  122 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~----~~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~  122 (331)
                      +|||||||+|||++|+++++.+     +.+++.+++++.    .+  ...+++.+..+....-   ...+.|++|||+|.
T Consensus        39 lLl~GppGtGKT~la~aiA~~l-----~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~---~~~~~vl~iDEiD~  110 (293)
T 3t15_A           39 LGIWGGKGQGKSFQCELVFRKM-----GINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIR---KGNMCCLFINDLDA  110 (293)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH-----TCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHT---TSSCCCEEEECCC-
T ss_pred             EEEECCCCCCHHHHHHHHHHHh-----CCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHh---cCCCeEEEEechhh
Confidence            8999999999999999999999     677888876432    11  1233344433321111   23467999999998


Q ss_pred             CCH-------------HHHHHHHHHHHH-------------hcCCcEEEEeeCCCCCCChhhhc--ccceeeecCCCHHH
Q 020071          123 MTA-------------GAQQALRRTMEI-------------YSNSTRFALACNVSSKIIEPIQS--RCAIVRFSRLSDEE  174 (331)
Q Consensus       123 l~~-------------~~~~~Ll~~le~-------------~~~~~~~I~~~~~~~~l~~~l~s--r~~~i~~~~~~~~~  174 (331)
                      +..             ..++.|+..++.             ...++.+|++||.++.+.+++++  |+....+ .|+.++
T Consensus       111 ~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~-~P~~~~  189 (293)
T 3t15_A          111 GAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW-APTRED  189 (293)
T ss_dssp             -------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE-CCCHHH
T ss_pred             hcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe-CcCHHH
Confidence            754             234888888862             23468899999999999999986  6655434 459999


Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHH-HhcCCCHH
Q 020071          175 ILSRLMVVVQEEKVPYVPEGLEAII-FTADGDMR  207 (331)
Q Consensus       175 ~~~~l~~~~~~~~~~i~~~~~~~l~-~~~~g~~r  207 (331)
                      ..++++......+  ++.+.+..+. ..++.++.
T Consensus       190 r~~Il~~~~~~~~--~~~~~l~~~~~~~~~~~l~  221 (293)
T 3t15_A          190 RIGVCTGIFRTDN--VPAEDVVKIVDNFPGQSID  221 (293)
T ss_dssp             HHHHHHHHHGGGC--CCHHHHHHHHHHSCSCCHH
T ss_pred             HHHHHHHhccCCC--CCHHHHHHHhCCCCcccHH
Confidence            9999998877665  4455444444 44555654

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=99.56  E-value=7.7e-14  Score=126.65  Aligned_cols=105  Identities=20%  Similarity=0.289  Sum_probs=78.7

Q ss_pred             ceEEEEeCCCCCCH------------HHHHHHHHHHHHh----------cCCcEEEEee----CCCCCCChhhhcccce-
Q 020071          112 HKVVVLDEADSMTA------------GAQQALRRTMEIY----------SNSTRFALAC----NVSSKIIEPIQSRCAI-  164 (331)
Q Consensus       112 ~~vviide~d~l~~------------~~~~~Ll~~le~~----------~~~~~~I~~~----~~~~~l~~~l~sr~~~-  164 (331)
                      ..++++||+|++..            ..|++|++++|..          ..++.||+++    .++..+.|.+.+|+.+ 
T Consensus       251 ~~il~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf~~~~~~dlipel~~R~~i~  330 (444)
T 1g41_A          251 NGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIR  330 (444)
T ss_dssp             HCEEEEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGGSCHHHHTTCCEE
T ss_pred             CCeeeHHHHHHHhhccCCCCCCchHHHHHHHHHHHhcccccccccceecCCcEEEEeccccccCChhhcchHHhccccee
Confidence            45899999998853            2678999999942          3456677776    2455577999999987 


Q ss_pred             eeecCCCHHHHHHHHHH-----------HHHhcC--CCCCHHHHHHHHHh--------cCCCHHHHHHHHHHH
Q 020071          165 VRFSRLSDEEILSRLMV-----------VVQEEK--VPYVPEGLEAIIFT--------ADGDMRQALNNLQAT  216 (331)
Q Consensus       165 i~~~~~~~~~~~~~l~~-----------~~~~~~--~~i~~~~~~~l~~~--------~~g~~r~~~~~l~~~  216 (331)
                      +.|++++.+++.+++..           .+..++  +.++++++..|++.        -+...|.+.+.++++
T Consensus       331 i~l~~lt~~e~~~Il~~~~~~l~~q~~~~~~~~~~~l~~~~~al~~i~~~a~~~~~~t~~~GaR~L~~~ie~~  403 (444)
T 1g41_A          331 VELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERL  403 (444)
T ss_dssp             EECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHH
T ss_pred             eeCCCCCHHHHHHHHHHHHHhHHHHHHHHhcccCceEEECHHHHHHHHHHHHHhccCCccCCchHHHHHHHHH
Confidence            79999999999999831           222233  45799999999985        356788887777755

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=99.53  E-value=1.1e-14  Score=141.00  Aligned_cols=180  Identities=20%  Similarity=0.210  Sum_probs=116.2

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc-----------C-CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD-----------G-NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~-----------~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      ...|+++.|.+++++.|...+..           | ..+ .+|||||||||||.+|++++.++     +.+++.++.++.
T Consensus       473 ~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~-----~~~f~~v~~~~l  547 (806)
T 3cf2_A          473 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISIKGPEL  547 (806)
T ss_dssp             CCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT-----TCEEEECCHHHH
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh-----CCceEEeccchh
Confidence            34799999999999998877642           2 122 39999999999999999999998     778887765432


Q ss_pred             ------CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHhc--CCcEEE
Q 020071           88 ------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIYS--NSTRFA  145 (331)
Q Consensus        88 ------~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~~--~~~~~I  145 (331)
                            .+...+++.+..+...       .+.||||||+|.+..              ...+.|+..|+...  .++.+|
T Consensus       548 ~s~~vGese~~vr~lF~~Ar~~-------~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi  620 (806)
T 3cf2_A          548 LTMWFGESEANVREIFDKARQA-------APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFII  620 (806)
T ss_dssp             HTTTCSSCHHHHHHHHHHHHTT-------CSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEEEE
T ss_pred             hccccchHHHHHHHHHHHHHHc-------CCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEE
Confidence                  2334566666655432       367999999998842              12567888888433  456677


Q ss_pred             EeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhc----CCCHHHHHHHH
Q 020071          146 LACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTA----DGDMRQALNNL  213 (331)
Q Consensus       146 ~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~----~g~~r~~~~~l  213 (331)
                      .+||.+..+.+++.+  |+ ..+.|++|+.++..++++..+++..+. ++..++.|++.+    +.|+..+++..
T Consensus       621 ~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~-~~~dl~~la~~t~g~SGadi~~l~~~A  694 (806)
T 3cf2_A          621 GATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQRA  694 (806)
T ss_dssp             CC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--C-CC----------------CHHHHHHHH
T ss_pred             EeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCCHHHHHHHHHHH
Confidence            788999999999988  77 457899998888888887766544322 223356666554    55777666554

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.53  E-value=1.6e-15  Score=144.12  Aligned_cols=157  Identities=20%  Similarity=0.199  Sum_probs=97.0

Q ss_pred             CccccCHHHHHHHHHHHHcCCCC-----------eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH
Q 020071           25 CDIVGNLDAVARLGIIARDGNMP-----------NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV   93 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~~~~~-----------~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i   93 (331)
                      ..++|++.++..+...+.+|..+           |+||+||||+|||++|+++++.+....+... ...++.+..+ ...
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~-~~~~~~~l~~-~~~  372 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTG-KGSTAAGLTA-AVV  372 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCT-TCSTTTTSEE-ECS
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCC-Cccccccccc-eee
Confidence            46889999988887777766322           6999999999999999999987732111000 0011111100 000


Q ss_pred             HHHHH-HHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-------------cCCcEEEEeeCCCC-------
Q 020071           94 RNKIK-MFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-------------SNSTRFALACNVSS-------  152 (331)
Q Consensus        94 ~~~i~-~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-------------~~~~~~I~~~~~~~-------  152 (331)
                      .+... .+...+..+..+.+.+++|||+|.++.+.+++|++.||+.             +.++.+|.++|...       
T Consensus       373 ~~~~~g~~~~~~G~l~~A~~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~  452 (595)
T 3f9v_A          373 REKGTGEYYLEAGALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISER  452 (595)
T ss_dssp             SGGGTSSCSEEECHHHHHSSSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTS
T ss_pred             eccccccccccCCeeEecCCCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCccc
Confidence            00000 0000000000123579999999999999999999999852             34677888888764       


Q ss_pred             ------CCChhhhccc-ceeeecCCCHHHHHHHHHHHH
Q 020071          153 ------KIIEPIQSRC-AIVRFSRLSDEEILSRLMVVV  183 (331)
Q Consensus       153 ------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~  183 (331)
                            .+.+++.+|+ ..+.+.+++..+...+.+...
T Consensus       453 ~~~~ni~l~~aLl~RFDl~~~~~~~~~~e~~~i~~~il  490 (595)
T 3f9v_A          453 PVSDNINLPPTILSRFDLIFILKDQPGEQDRELANYIL  490 (595)
T ss_dssp             CSCTTTCSCSSSGGGCSCCEEECCTTHHHHHHHHHHHH
T ss_pred             CchhccCCCHHHHhhCeEEEEeCCCCCHHHHHHHHHHH
Confidence                  7889999999 455566665555333344333

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.51  E-value=1.7e-14  Score=112.03  Aligned_cols=128  Identities=13%  Similarity=0.150  Sum_probs=89.5

Q ss_pred             ccccCHHHHHHHHHHHHc--CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc
Q 020071           26 DIVGNLDAVARLGIIARD--GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK  103 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  103 (331)
                      +++|++..++.+.+.+..  ....+++|+||+|+|||++|+++++..     . +++.+++..... +.....+.     
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~-----~-~~~~~~~~~~~~-~~~~~~~~-----   72 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG-----T-PWVSPARVEYLI-DMPMELLQ-----   72 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT-----S-CEECCSSTTHHH-HCHHHHHH-----
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC-----C-CeEEechhhCCh-HhhhhHHH-----
Confidence            588999999888888764  233459999999999999999998865     3 788888775311 11112211     


Q ss_pred             ccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-cCCcEEEEeeCCC-CC----CChhhhcccc--eeeecCC
Q 020071          104 KVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-SNSTRFALACNVS-SK----IIEPIQSRCA--IVRFSRL  170 (331)
Q Consensus       104 ~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-~~~~~~I~~~~~~-~~----l~~~l~sr~~--~i~~~~~  170 (331)
                           ..+..+++|||++.++.+.+..|++++++. +.++++|+++|.. ..    +.+.+..|+.  .+.++|+
T Consensus        73 -----~a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~~~~~~~~~~~~~L~~rl~~~~i~lPpL  142 (143)
T 3co5_A           73 -----KAEGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSYAAGSDGISCEEKLAGLFSESVVRIPPL  142 (143)
T ss_dssp             -----HTTTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEECTTTC--CHHHHHHHHSSSEEEEECCC
T ss_pred             -----hCCCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCCCHHHHHhCccHHHHHHhcCcEEeCCCC
Confidence                 123569999999999999999999999975 4568899998754 23    3345556643  3566665

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.50  E-value=1.3e-12  Score=112.57  Aligned_cols=174  Identities=21%  Similarity=0.200  Sum_probs=109.5

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHc------------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARD------------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~------------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      ...+|+|+.|.+++++.+...+..            -..+ +++|+||+|+|||+++++++..+     +..++.+++.+
T Consensus         5 ~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~-----~~~~i~i~g~~   79 (274)
T 2x8a_A            5 PNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES-----GLNFISVKGPE   79 (274)
T ss_dssp             -------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT-----TCEEEEEETTT
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc-----CCCEEEEEcHH
Confidence            346899999999999988775421            1222 39999999999999999999987     55678888766


Q ss_pred             CCC--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-----------HHHHHHHHHHHHh--cCCcEEEEeeCCC
Q 020071           87 DRG--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-----------GAQQALRRTMEIY--SNSTRFALACNVS  151 (331)
Q Consensus        87 ~~~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-----------~~~~~Ll~~le~~--~~~~~~I~~~~~~  151 (331)
                      ...  .......+....+...   ...+.++++||++.+..           ...+.++..|+..  ...+.++.++|.+
T Consensus        80 l~~~~~~~~~~~i~~vf~~a~---~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p  156 (274)
T 2x8a_A           80 LLNMYVGESERAVRQVFQRAK---NSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRP  156 (274)
T ss_dssp             TCSSTTHHHHHHHHHHHHHHH---HTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCG
T ss_pred             HHhhhhhHHHHHHHHHHHHHH---hcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCCh
Confidence            532  1222222332222211   12356999999998632           1234555555532  2345566778889


Q ss_pred             CCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhc-CCCCC-HHHHHHHHHh
Q 020071          152 SKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEE-KVPYV-PEGLEAIIFT  201 (331)
Q Consensus       152 ~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~-~~~i~-~~~~~~l~~~  201 (331)
                      ..+.+++++  |+ ..+.+++|+.++..++++...+.. ...++ +..++.++..
T Consensus       157 ~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~  211 (274)
T 2x8a_A          157 DIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGD  211 (274)
T ss_dssp             GGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTC
T ss_pred             hhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHh
Confidence            999999987  76 457899999999999998876432 22222 2235666653

>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=99.49  E-value=5.8e-13  Score=119.47  Aligned_cols=189  Identities=16%  Similarity=0.209  Sum_probs=132.0

Q ss_pred             CccccCHHHHHHHHHHHHc--CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHh
Q 020071           25 CDIVGNLDAVARLGIIARD--GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQ  102 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~--~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~  102 (331)
                      .+++|++..+..+...+..  ....+++++|++|+||+.+|+.++......   ..++.+||.... .+.+...+-....
T Consensus       129 ~~~ig~s~~~~~~~~~~~~~a~~~~~vli~GesGtGKe~lAr~ih~~s~r~---~~fv~vnc~~~~-~~~~~~~lfg~~~  204 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPKIAKSKAPVLITGESGTGKEIVARLIHRYSGRK---GAFVDLNCASIP-QELAESELFGHEK  204 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHTSCSCEEEECCTTSSHHHHHHHHHHHHCCC---SCEEEEESSSSC-TTTHHHHHHEECS
T ss_pred             ccccccchHHHHHHhhhhhhhccchhheEEeCCCchHHHHHHHHHHhcccc---CCcEEEEcccCC-hHHHHHHhcCccc
Confidence            4678888877766655533  122249999999999999999999876432   238999998652 2222222211111


Q ss_pred             cccCCC---------CCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCC-------CCCC
Q 020071          103 KKVTLP---------PGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVS-------SKII  155 (331)
Q Consensus       103 ~~~~~~---------~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~-------~~l~  155 (331)
                      ..++-.         .++++++++||++.++...|..|++++++.           +.++++|.+||..       ..+.
T Consensus       205 g~~tga~~~~~g~~~~a~~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~v~~g~fr  284 (368)
T 3dzd_A          205 GAFTGALTRKKGKLELADQGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISATNKNLEEEIKKGNFR  284 (368)
T ss_dssp             CSSSSCCCCEECHHHHTTTSEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCBEECCCEEEEEESSCHHHHHHTTSSC
T ss_pred             cccCCcccccCChHhhcCCCeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcceeeeeEEEEecCCCHHHHHHcCCcc
Confidence            111100         134679999999999999999999999963           2367899998863       3566


Q ss_pred             hhhhcccce--eeecCCCH--HHHHHHHHHH----HHhcC---CCCCHHHHHHHHHhc-CCCHHHHHHHHHHHh
Q 020071          156 EPIQSRCAI--VRFSRLSD--EEILSRLMVV----VQEEK---VPYVPEGLEAIIFTA-DGDMRQALNNLQATY  217 (331)
Q Consensus       156 ~~l~sr~~~--i~~~~~~~--~~~~~~l~~~----~~~~~---~~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~  217 (331)
                      +.+..|+.+  +.++|+.+  +++..++...    +.+.+   ..+++++++.|..+. .||+|++.|.++.++
T Consensus       285 ~dL~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpGNvreL~n~i~~~~  358 (368)
T 3dzd_A          285 EDLYYRLSVFQIYLPPLRERGKDVILLAEYFLKKFAKEYKKNCFELSEETKEYLMKQEWKGNVRELKNLIERAV  358 (368)
T ss_dssp             HHHHHHHTSEEEECCCGGGSTTHHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHTCCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCeEEeCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHhCCCCcHHHHHHHHHHHHH
Confidence            778888665  56888887  5655544443    33334   458999999999988 899999999999875

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.49  E-value=2.1e-12  Score=115.13  Aligned_cols=180  Identities=13%  Similarity=0.083  Sum_probs=122.1

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC------ChHh----
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR------GIDV----   92 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~------~~~~----   92 (331)
                      .-..++|+++.+..|.+.+..+  +.++++||+|+|||++++.+++..     +  ++.+++....      ....    
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~-----~--~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER-----P--GILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS-----S--EEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc-----C--cEEEEeecccccccCCCHHHHHHH
Confidence            3457899999999999999876  468999999999999999999875     2  3333332110      1111    


Q ss_pred             --------------------------------HHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH-------HHHHHHHH
Q 020071           93 --------------------------------VRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA-------GAQQALRR  133 (331)
Q Consensus        93 --------------------------------i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~-------~~~~~Ll~  133 (331)
                                                      +.+.+........   ..++.+++|||++.+..       +....|..
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~  157 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGE---ELGEFIVAFDEAQYLRFYGSRGGKELLALFAY  157 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHH---HHSCEEEEEETGGGGGGBTTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHh---ccCCEEEEEeCHHHHhccCccchhhHHHHHHH
Confidence                                            1111111111000   01267999999999753       34455555


Q ss_pred             HHHHhcCCcEEEEeeCCCC---------CCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcC
Q 020071          134 TMEIYSNSTRFALACNVSS---------KIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTAD  203 (331)
Q Consensus       134 ~le~~~~~~~~I~~~~~~~---------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~  203 (331)
                      .++.. .++.+|+++....         .....+..|. ..+.+.|++.++..+++...+...+..++++.+..+...++
T Consensus       158 ~~~~~-~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~~~~~~~i~~~tg  236 (350)
T 2qen_A          158 AYDSL-PNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVPENEIEEAVELLD  236 (350)
T ss_dssp             HHHHC-TTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHT
T ss_pred             HHHhc-CCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhC
Confidence            55553 4677888765421         1122344344 57899999999999999988877788889999999999999


Q ss_pred             CCHHHHHHHHHH
Q 020071          204 GDMRQALNNLQA  215 (331)
Q Consensus       204 g~~r~~~~~l~~  215 (331)
                      |++..+......
T Consensus       237 G~P~~l~~~~~~  248 (350)
T 2qen_A          237 GIPGWLVVFGVE  248 (350)
T ss_dssp             TCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999876655544

>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=99.46  E-value=4.1e-12  Score=114.84  Aligned_cols=203  Identities=16%  Similarity=0.165  Sum_probs=138.7

Q ss_pred             CCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHH
Q 020071           24 VCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFA  101 (331)
Q Consensus        24 ~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~  101 (331)
                      +..++|....+..+.+.+..-  ...+++++|++|+||+.+|+.++......  ..+|+.+||... ..+.+...+-...
T Consensus       136 ~~~~ig~s~~m~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~--~~~fv~v~~~~~-~~~~~~~elfg~~  212 (387)
T 1ny5_A          136 EEEYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSDRS--KEPFVALNVASI-PRDIFEAELFGYE  212 (387)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHSTTT--TSCEEEEETTTS-CHHHHHHHHHCBC
T ss_pred             chhhhhccHHhhHHHHHHHHhcCCCCCeEEecCCCcCHHHHHHHHHHhcCCC--CCCeEEEecCCC-CHHHHHHHhcCCC
Confidence            567888888888777666542  11238999999999999999999875332  467999999875 2222222221111


Q ss_pred             hcccCCC---------CCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCCC-------CCC
Q 020071          102 QKKVTLP---------PGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNVS-------SKI  154 (331)
Q Consensus       102 ~~~~~~~---------~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~~-------~~l  154 (331)
                      ...++-.         ..+++++++||++.++.+.|..|++++++.           +.++++|++||..       ..+
T Consensus       213 ~g~~tga~~~~~g~~~~a~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~rii~at~~~l~~~~~~g~f  292 (387)
T 1ny5_A          213 KGAFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKF  292 (387)
T ss_dssp             TTSSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSS
T ss_pred             CCCCCCcccccCCceeeCCCcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCCCCHHHHHHcCCc
Confidence            1111100         134679999999999999999999999962           2477899998863       355


Q ss_pred             Chhhhcccc--eeeecCCCH--HHHHHHHHH----HHHhcCC---CCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hCC
Q 020071          155 IEPIQSRCA--IVRFSRLSD--EEILSRLMV----VVQEEKV---PYVPEGLEAIIFTA-DGDMRQALNNLQATY--SGF  220 (331)
Q Consensus       155 ~~~l~sr~~--~i~~~~~~~--~~~~~~l~~----~~~~~~~---~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~~  220 (331)
                      .+.+-.|..  .+.++|+.+  +++..++..    .+.+.+.   .+++++++.+..+. .||+|.+.+.++.++  ..+
T Consensus       293 r~dl~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l~~~~wpGNvreL~~~i~~~~~~~~~  372 (387)
T 1ny5_A          293 REDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSEG  372 (387)
T ss_dssp             CHHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCCS
T ss_pred             cHHHHHhhcCCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHHhCCC
Confidence            666666653  457777765  555544443    3344443   47899999999877 899999999998764  334


Q ss_pred             Cccchhhhh
Q 020071          221 RFVNQENVF  229 (331)
Q Consensus       221 ~~i~~~~v~  229 (331)
                      ..|+.+++-
T Consensus       373 ~~i~~~~l~  381 (387)
T 1ny5_A          373 KFIDRGELS  381 (387)
T ss_dssp             SEECHHHHH
T ss_pred             CcCcHHHCc
Confidence            467766553

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.40  E-value=1e-11  Score=110.78  Aligned_cols=177  Identities=19%  Similarity=0.166  Sum_probs=117.8

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-----CChHhH----
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-----RGIDVV----   93 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-----~~~~~i----   93 (331)
                      ..+.++|+++.+..|.. +..   +.++++||+|+|||++++.+++...     ..++.+++...     .....+    
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELN-----LPYIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHT-----CCEEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcC-----CCEEEEEchhhccccCCCHHHHHHHH
Confidence            44678999999999998 765   5689999999999999999999873     23444444321     111111    


Q ss_pred             -------------------------------------------HHHHHHHHhcccCCCCCCceEEEEeCCCCCCH----H
Q 020071           94 -------------------------------------------RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA----G  126 (331)
Q Consensus        94 -------------------------------------------~~~i~~~~~~~~~~~~~~~~vviide~d~l~~----~  126 (331)
                                                                 .+.+.......    . ++.+++|||+|.+..    +
T Consensus        82 ~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~----~-~~~vlvlDe~~~~~~~~~~~  156 (357)
T 2fna_A           82 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQAS----K-DNVIIVLDEAQELVKLRGVN  156 (357)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTC----S-SCEEEEEETGGGGGGCTTCC
T ss_pred             HHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcC----C-CCeEEEEECHHHhhccCchh
Confidence                                                       11111111100    1 367999999999753    2


Q ss_pred             HHHHHHHHHHHhcCCcEEEEeeCCCC---------CCChhhhccc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHH
Q 020071          127 AQQALRRTMEIYSNSTRFALACNVSS---------KIIEPIQSRC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLE  196 (331)
Q Consensus       127 ~~~~Ll~~le~~~~~~~~I~~~~~~~---------~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~  196 (331)
                      ....|....+.. .++.+|+++....         .....+..|. ..+.+.|++.++..+++...+...+...++.  .
T Consensus       157 ~~~~l~~~~~~~-~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~--~  233 (357)
T 2fna_A          157 LLPALAYAYDNL-KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKDY--E  233 (357)
T ss_dssp             CHHHHHHHHHHC-TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCCH--H
T ss_pred             HHHHHHHHHHcC-CCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCcH--H
Confidence            334454455543 3677888876531         1122344454 6889999999999999998876666666544  8


Q ss_pred             HHHHhcCCCHHHHHHHHHHH
Q 020071          197 AIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       197 ~l~~~~~g~~r~~~~~l~~~  216 (331)
                      .+...++|++..+......+
T Consensus       234 ~i~~~t~G~P~~l~~~~~~~  253 (357)
T 2fna_A          234 VVYEKIGGIPGWLTYFGFIY  253 (357)
T ss_dssp             HHHHHHCSCHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHH
Confidence            89999999999876666554

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=99.35  E-value=2.7e-12  Score=103.48  Aligned_cols=130  Identities=16%  Similarity=0.188  Sum_probs=82.9

Q ss_pred             hhcCCCCCCcccc----CHHHHHHHHHHHHcCCC---CeEEEeCCCCccHHHHHHHHHHHhc-CCCCCCceEEeecCCCC
Q 020071           17 EKYRPTKVCDIVG----NLDAVARLGIIARDGNM---PNLILAGPPGTGKTTSILALAHELL-GPNYREAVMELNASDDR   88 (331)
Q Consensus        17 ~~~~p~~~~~~ig----~~~~~~~l~~~l~~~~~---~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~   88 (331)
                      ++|++.+|+++++    +.+++..+..++.+...   ..++|+||+|+|||+++++++..+. ..+.  .++.++..+  
T Consensus         2 ~r~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~--~~~~~~~~~--   77 (180)
T 3ec2_A            2 KRYWNANLDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGI--RGYFFDTKD--   77 (180)
T ss_dssp             CSCTTCCSSSCCCCSHHHHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCC--CCCEEEHHH--
T ss_pred             chhhhCccccccCCCHHHHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCC--eEEEEEHHH--
Confidence            6899999999986    45666677777766433   2389999999999999999999874 2221  222232211  


Q ss_pred             ChHhHHHHHHHHHhcccC---CCCCCceEEEEeCCC--CCCHHHHHHHHHHHHHhc-CCcEEEEeeCCCCC
Q 020071           89 GIDVVRNKIKMFAQKKVT---LPPGKHKVVVLDEAD--SMTAGAQQALRRTMEIYS-NSTRFALACNVSSK  153 (331)
Q Consensus        89 ~~~~i~~~i~~~~~~~~~---~~~~~~~vviide~d--~l~~~~~~~Ll~~le~~~-~~~~~I~~~~~~~~  153 (331)
                         .+......+......   ....+..++||||++  .++....+.|..+++... .+..+|++||....
T Consensus        78 ---~~~~~~~~~~~~~~~~~~~~~~~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~~~~  145 (180)
T 3ec2_A           78 ---LIFRLKHLMDEGKDTKFLKTVLNSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNYSLQ  145 (180)
T ss_dssp             ---HHHHHHHHHHHTCCSHHHHHHHTCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCCCSC
T ss_pred             ---HHHHHHHHhcCchHHHHHHHhcCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCCChh
Confidence               111111111110000   001246799999998  567777888888887643 56778888887644

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=99.24  E-value=5.3e-11  Score=100.50  Aligned_cols=133  Identities=18%  Similarity=0.197  Sum_probs=88.3

Q ss_pred             HHHHHHHHcC-C-CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCC-CC
Q 020071           35 ARLGIIARDG-N-MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPP-GK  111 (331)
Q Consensus        35 ~~l~~~l~~~-~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~-~~  111 (331)
                      ..+..++++. . ..+++||||||+|||.++.++++.+.     . +..++....                .+.+.. .+
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~~-----l-~G~vn~~~~----------------~f~l~~~~~  148 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVP-----F-YGCVNWTNE----------------NFPFNDCVD  148 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSS-----C-EEECCTTCS----------------SCTTGGGSS
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhhc-----c-cceeecccc----------------ccccccccc
Confidence            3466666654 2 23499999999999999999999752     1 222222211                011111 23


Q ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHH--------Hhc-----CCcEEEEeeCCC-----------CCCChhhhcccceeee
Q 020071          112 HKVVVLDEADSMTAGAQQALRRTME--------IYS-----NSTRFALACNVS-----------SKIIEPIQSRCAIVRF  167 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~Ll~~le--------~~~-----~~~~~I~~~~~~-----------~~l~~~l~sr~~~i~~  167 (331)
                      +++++.||+ .+..+.++.+.++++        ...     ..+++|++||..           ....+.|+||+.++.|
T Consensus       149 k~i~l~Ee~-~~~~d~~~~lr~i~~G~~~~id~K~k~~~~v~~tPvIitsN~~i~~~~~g~~~s~~~~~~L~sR~~~f~F  227 (267)
T 1u0j_A          149 KMVIWWEEG-KMTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMFKFEL  227 (267)
T ss_dssp             CSEEEECSC-CEETTTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHTTEEEEEC
T ss_pred             cEEEEeccc-cchhHHHHHHHHHhCCCcEEEecCcCCcccccCCCEEEEecCCcccccccCccchhhhHHHhhhEEEEEC
Confidence            455555555 455567778888887        322     567899999871           2566899999999999


Q ss_pred             c--------CCCHHHHHHHHHHHHHhcCCCCC
Q 020071          168 S--------RLSDEEILSRLMVVVQEEKVPYV  191 (331)
Q Consensus       168 ~--------~~~~~~~~~~l~~~~~~~~~~i~  191 (331)
                      .        +++++++..++... +.+..+++
T Consensus       228 ~~~~p~~~~~lt~~~~~~f~~w~-~~~~~~~~  258 (267)
T 1u0j_A          228 TRRLDHDFGKVTKQEVKDFFRWA-KDHVVEVE  258 (267)
T ss_dssp             CSCCCTTSCCCCHHHHHHHHHHH-HHTCCCCC
T ss_pred             CCcCCcccCCCCHHHHHHHHHHH-HHcCCCCc
Confidence            9        89999999999844 56665543

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=99.18  E-value=5.2e-11  Score=110.19  Aligned_cols=139  Identities=13%  Similarity=0.114  Sum_probs=81.4

Q ss_pred             CCCCCCCCchhhhcCCCCCCccc-cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071            6 SSSSAYDIPWVEKYRPTKVCDIV-GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus         6 ~~~~~~~~~~~~~~~p~~~~~~i-g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      +.-..+..||..||||++|+++- +|.+++..+...+.++.. ++++.|++|+|||+++..+++.+.+.+. ..++.+.+
T Consensus         5 ~~~~~~~~~~~~~~~p~~~~~Ln~~Q~~av~~~~~~i~~~~~-~~li~G~aGTGKT~ll~~~~~~l~~~~~-~~il~~a~   82 (459)
T 3upu_A            5 HHHHHHSSGLVPRGSHMTFDDLTEGQKNAFNIVMKAIKEKKH-HVTINGPAGTGATTLTKFIIEALISTGE-TGIILAAP   82 (459)
T ss_dssp             ----------------CCSSCCCHHHHHHHHHHHHHHHSSSC-EEEEECCTTSCHHHHHHHHHHHHHHTTC-CCEEEEES
T ss_pred             CCCCCccCCCccccCCCccccCCHHHHHHHHHHHHHHhcCCC-EEEEEeCCCCCHHHHHHHHHHHHHhcCC-ceEEEecC
Confidence            34455677999999999999987 788888888888887663 6899999999999999999998865433 12333322


Q ss_pred             CCCCChHhHHHHH-------HHHHhcc-------------cCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEE
Q 020071           85 SDDRGIDVVRNKI-------KMFAQKK-------------VTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRF  144 (331)
Q Consensus        85 ~~~~~~~~i~~~i-------~~~~~~~-------------~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~  144 (331)
                      . ......+.+.+       ..+....             ......+..++||||++.++......|++.+.   ..+.+
T Consensus        83 T-~~Aa~~l~~~~~~~~~T~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiDE~~~~~~~~~~~l~~~~~---~~~~~  158 (459)
T 3upu_A           83 T-HAAKKILSKLSGKEASTIHSILKINPVTYEENVLFEQKEVPDLAKCRVLICDEVSMYDRKLFKILLSTIP---PWCTI  158 (459)
T ss_dssp             S-HHHHHHHHHHHSSCEEEHHHHHTEEEEECSSCEEEEECSCCCCSSCSEEEESCGGGCCHHHHHHHHHHSC---TTCEE
T ss_pred             c-HHHHHHHHhhhccchhhHHHHhccCcccccccchhcccccccccCCCEEEEECchhCCHHHHHHHHHhcc---CCCEE
Confidence            2 11111222211       1111100             00112357899999999999888888887764   56677


Q ss_pred             EEeeCC
Q 020071          145 ALACNV  150 (331)
Q Consensus       145 I~~~~~  150 (331)
                      +++...
T Consensus       159 ~~vGD~  164 (459)
T 3upu_A          159 IGIGDN  164 (459)
T ss_dssp             EEEECT
T ss_pred             EEECCH
Confidence            777644

>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=99.14  E-value=4e-10  Score=101.89  Aligned_cols=169  Identities=13%  Similarity=0.123  Sum_probs=106.6

Q ss_pred             cccCHHHHHHHHHHHHcCC-----CCeEEEeCCCCccHHHHHHHH-HHHhcCCCCCCceEEeecCCCCChH-hHHHHHHH
Q 020071           27 IVGNLDAVARLGIIARDGN-----MPNLILAGPPGTGKTTSILAL-AHELLGPNYREAVMELNASDDRGID-VVRNKIKM   99 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~~-----~~~~ll~G~~G~GKt~la~~l-~~~l~~~~~~~~~~~~~~~~~~~~~-~i~~~i~~   99 (331)
                      ++||+.++..+.-.+-+|.     --|+|+.|+||+ ||.+|+.+ ++.+.    ...+....++...+.. .+++. ..
T Consensus       215 I~G~e~vK~aLll~L~GG~~k~rgdihVLL~G~PGt-KS~Lar~i~~~i~p----R~~ft~g~~ss~~gLt~s~r~~-tG  288 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFSCVGKNSERLHVLLAGYPVV-CSEILHHVLDHLAP----RGVYVDLRRTELTDLTAVLKED-RG  288 (506)
T ss_dssp             STTCHHHHHHHHHHHTTCCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTCS----SEEEEEGGGCCHHHHSEEEEES-SS
T ss_pred             cCCCHHHHHHHHHHHcCCccccCCceeEEEECCCCh-HHHHHHHHHHHhCC----CeEEecCCCCCccCceEEEEcC-CC
Confidence            8899999888877777763     126999999999 99999999 66542    1111111111000000 00000 00


Q ss_pred             HHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh---------cCCcEEEEeeCCCC-----------CCChhhh
Q 020071          100 FAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY---------SNSTRFALACNVSS-----------KIIEPIQ  159 (331)
Q Consensus       100 ~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~---------~~~~~~I~~~~~~~-----------~l~~~l~  159 (331)
                      +...+-.+..+...++++||++.++++.+.+|++.||+.         +..+.+|.++|...           .+.+++.
T Consensus       289 ~~~~~G~l~LAdgGvl~lDEIn~~~~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~NP~~~yd~~~s~~~~~Lp~alL  368 (506)
T 3f8t_A          289 WALRAGAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVDGIALNARCAVLAAINPGEQWPSDPPIARIDLDQDFL  368 (506)
T ss_dssp             EEEEECHHHHTTTSEEEEECCTTCCHHHHHHHHHHHHHSEEEETTEEEECCCEEEEEECCCC--CCSCGGGGCCSCHHHH
T ss_pred             cccCCCeeEEcCCCeeehHhhhhCCHHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEeCcccccCCCCCccccCCChHHh
Confidence            000000011245789999999999999999999999963         56788999988754           7889999


Q ss_pred             cccceeee---------------cCCCHHHHHHHHHHHH-HhcCCCCCHHHHHHHHHh
Q 020071          160 SRCAIVRF---------------SRLSDEEILSRLMVVV-QEEKVPYVPEGLEAIIFT  201 (331)
Q Consensus       160 sr~~~i~~---------------~~~~~~~~~~~l~~~~-~~~~~~i~~~~~~~l~~~  201 (331)
                      +|+..+..               +.++.+++.+++...- ......+++++.++|++.
T Consensus       369 DRFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~~ar~~~~~p~ls~ea~~yI~~~  426 (506)
T 3f8t_A          369 SHFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLLYAIREHPAPELTEEARKRLEHW  426 (506)
T ss_dssp             TTCSEEEETTC--------------CCHHHHHHHHHHHHHHCSCCEECHHHHHHHHHH
T ss_pred             hheeeEEEecCCCChhHhhcccCCCCCHHHHHHHHHHHHhcCCCceeCHHHHHHHHHH
Confidence            99844321               2345566666665432 123567888888777743

>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=99.12  E-value=9.3e-10  Score=118.58  Aligned_cols=166  Identities=18%  Similarity=0.209  Sum_probs=113.6

Q ss_pred             chhhhcCCC-------CCCc-cccCHHHHH---HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           14 PWVEKYRPT-------KVCD-IVGNLDAVA---RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        14 ~~~~~~~p~-------~~~~-~ig~~~~~~---~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      ||.++..+.       .+.+ +|--.+..+   .+..++..++  ++||+||||||||++|+.+.....    +..+..+
T Consensus      1226 ~W~~~v~~~~~~~~~~~~~~iiVpT~DT~R~~~ll~~~l~~~~--~vLL~GPpGtGKT~la~~~l~~~~----~~~~~~i 1299 (2695)
T 4akg_A         1226 SFCSEIPSVSLEAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKR--GIILCGPPGSGKTMIMNNALRNSS----LYDVVGI 1299 (2695)
T ss_dssp             CCCCCCCCCCCCSGGGSCSSCCCCCHHHHHHHHHHHHHHHHTC--EEEEECSTTSSHHHHHHHHHHSCS----SCEEEEE
T ss_pred             echhcCCCcccCccccCccceeEeccchHHHHHHHHHHHHCCC--eEEEECCCCCCHHHHHHHHHhcCC----CCceEEE
Confidence            677765322       2333 444444443   4556666664  699999999999999977766542    4566778


Q ss_pred             ecCCCCChHhHHHHHHHHHhcc-------cCC-CCCCceEEEEeCCCCCCH------HHHHHHHHHHHHhc---------
Q 020071           83 NASDDRGIDVVRNKIKMFAQKK-------VTL-PPGKHKVVVLDEADSMTA------GAQQALRRTMEIYS---------  139 (331)
Q Consensus        83 ~~~~~~~~~~i~~~i~~~~~~~-------~~~-~~~~~~vviide~d~l~~------~~~~~Ll~~le~~~---------  139 (331)
                      +.+...+...+...+.......       +.. +.+.+.|++|||++....      ...+.|...+|...         
T Consensus      1300 nfsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~ 1379 (2695)
T 4akg_A         1300 NFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKW 1379 (2695)
T ss_dssp             ECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCE
T ss_pred             EeecCCCHHHHHHHHHHHhhhccccCCccccCCCCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcE
Confidence            8777666666666666543211       111 134567999999776432      35677778887411         


Q ss_pred             ---CCcEEEEeeCCC-----CCCChhhhcccceeeecCCCHHHHHHHHHHHHHh
Q 020071          140 ---NSTRFALACNVS-----SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQE  185 (331)
Q Consensus       140 ---~~~~~I~~~~~~-----~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~  185 (331)
                         .++.+|.++|.+     ..+.+++.+||.++.+++|+.+++..++..+.+.
T Consensus      1380 ~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf~vi~i~~P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1380 VTIERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             EEEESEEEEEEECCTTSTTCCCCCHHHHTTEEEEECCCCTTTHHHHHHHHHHHH
T ss_pred             EEecCEEEEEecCCCccCCCccCChhhhheeeEEEeCCCCHHHHHHHHHHHHHH
Confidence               246788888887     4799999999999999999999999999887653

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.08  E-value=1.9e-10  Score=94.34  Aligned_cols=127  Identities=17%  Similarity=0.124  Sum_probs=77.0

Q ss_pred             chhhhcCCCCCCccccCH----HHHHHHHHHHHcCCC----CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           14 PWVEKYRPTKVCDIVGNL----DAVARLGIIARDGNM----PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~----~~~~~l~~~l~~~~~----~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .+..+|++.+|+++++..    .++..+.+++.....    .+++|+||+|+|||++++++++.+...+  ..++.+++.
T Consensus        14 ~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~--~~~~~~~~~   91 (202)
T 2w58_A           14 FMPREILRASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRN--VSSLIVYVP   91 (202)
T ss_dssp             SSCGGGGCCCTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTT--CCEEEEEHH
T ss_pred             CCCHHHHcCCHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEEhH
Confidence            345678899999999744    355666777765521    4599999999999999999999886543  344444432


Q ss_pred             CCCC-------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--HHHHHHH-HHHHHh-cCCcEEEEeeCCC
Q 020071           86 DDRG-------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--GAQQALR-RTMEIY-SNSTRFALACNVS  151 (331)
Q Consensus        86 ~~~~-------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--~~~~~Ll-~~le~~-~~~~~~I~~~~~~  151 (331)
                      +...       .......+..+.         ...+++|||++....  ..+..++ .+++.. ....++|+++|..
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~---------~~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~~  159 (202)
T 2w58_A           92 ELFRELKHSLQDQTMNEKLDYIK---------KVPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNFD  159 (202)
T ss_dssp             HHHHHHHHC---CCCHHHHHHHH---------HSSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESSC
T ss_pred             HHHHHHHHHhccchHHHHHHHhc---------CCCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCCC
Confidence            1100       000011111111         234999999976543  2244344 466543 4566788888753

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.07  E-value=3.8e-10  Score=87.76  Aligned_cols=119  Identities=15%  Similarity=0.170  Sum_probs=77.7

Q ss_pred             CCCccc-c-CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           23 KVCDIV-G-NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        23 ~~~~~i-g-~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      +|++++ | +..++..+...    ....++|+||+|+|||++++.++..+...  +...+.++..+....          
T Consensus        15 ~~~~f~~g~n~~~~~~l~~~----~g~~~~l~G~~G~GKTtL~~~i~~~~~~~--g~~~~~~~~~~~~~~----------   78 (149)
T 2kjq_A           15 SFDKFLGTENAELVYVLRHK----HGQFIYVWGEEGAGKSHLLQAWVAQALEA--GKNAAYIDAASMPLT----------   78 (149)
T ss_dssp             CCCCCCSCCTHHHHHHCCCC----CCSEEEEESSSTTTTCHHHHHHHHHHHTT--TCCEEEEETTTSCCC----------
T ss_pred             chhhcCcCccHHHHHHHHhc----CCCEEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEcHHHhhHH----------
Confidence            455544 3 34444444444    22348999999999999999999988543  334666666554322          


Q ss_pred             HhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcC--CcEEEEeeCCC-CCC--Chhhhcccc
Q 020071          101 AQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSN--STRFALACNVS-SKI--IEPIQSRCA  163 (331)
Q Consensus       101 ~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~--~~~~I~~~~~~-~~l--~~~l~sr~~  163 (331)
                         .+   ..+..+++|||++.+....++.|..+++....  .+++|++++.. ..+  .+.+.||+.
T Consensus        79 ---~~---~~~~~lLilDE~~~~~~~~~~~l~~li~~~~~~g~~~iiits~~~p~~l~~~~~L~SRl~  140 (149)
T 2kjq_A           79 ---DA---AFEAEYLAVDQVEKLGNEEQALLFSIFNRFRNSGKGFLLLGSEYTPQQLVIREDLRTRMA  140 (149)
T ss_dssp             ---GG---GGGCSEEEEESTTCCCSHHHHHHHHHHHHHHHHTCCEEEEEESSCTTTSSCCHHHHHHGG
T ss_pred             ---HH---HhCCCEEEEeCccccChHHHHHHHHHHHHHHHcCCcEEEEECCCCHHHccccHHHHHHHh
Confidence               01   12367999999999987778888888875332  22377777743 322  289999964

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=99.05  E-value=7.5e-10  Score=89.31  Aligned_cols=115  Identities=22%  Similarity=0.319  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHHcCCCC---eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCC
Q 020071           32 DAVARLGIIARDGNMP---NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLP  108 (331)
Q Consensus        32 ~~~~~l~~~l~~~~~~---~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~  108 (331)
                      ..+..++.++++  .|   +++||||||+|||++|.++++.+.+     .++.+..... .          +.-.+    
T Consensus        43 ~f~~~l~~~~~~--iPkkn~ili~GPPGtGKTt~a~ala~~l~g-----~i~~fans~s-~----------f~l~~----  100 (212)
T 1tue_A           43 TFLGALKSFLKG--TPKKNCLVFCGPANTGKSYFGMSFIHFIQG-----AVISFVNSTS-H----------FWLEP----  100 (212)
T ss_dssp             HHHHHHHHHHHT--CTTCSEEEEESCGGGCHHHHHHHHHHHHTC-----EECCCCCSSS-C----------GGGGG----
T ss_pred             HHHHHHHHHHhc--CCcccEEEEECCCCCCHHHHHHHHHHHhCC-----CeeeEEeccc-h----------hhhcc----
Confidence            345566777764  34   5999999999999999999999842     2222111110 0          00011    


Q ss_pred             CCCceEEEEeCCCCCCHHH-HHHHHHHHHHhc-------------CCcEEEEeeCCC---CCCChhhhcccceeeec
Q 020071          109 PGKHKVVVLDEADSMTAGA-QQALRRTMEIYS-------------NSTRFALACNVS---SKIIEPIQSRCAIVRFS  168 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~~-~~~Ll~~le~~~-------------~~~~~I~~~~~~---~~l~~~l~sr~~~i~~~  168 (331)
                      ..+.+++++||++.-.... ...+..+++..+             ...++|+|||..   ....+.|.||+..+.|+
T Consensus       101 l~~~kIiiLDEad~~~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~SRi~~f~F~  177 (212)
T 1tue_A          101 LTDTKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEFP  177 (212)
T ss_dssp             GTTCSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEECC
T ss_pred             cCCCCEEEEECCCchhHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhhhEEEEEcC
Confidence            2346799999998421111 234555555432             134789999873   44558899999988776

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.95  E-value=5.7e-10  Score=97.55  Aligned_cols=130  Identities=18%  Similarity=0.173  Sum_probs=73.3

Q ss_pred             chhhhcCCCCCCccccC----HHHHHHHHHHHHcCC---CCeEEEeCCCCccHHHHHHHHHHHhc-CCCCCCceEEeecC
Q 020071           14 PWVEKYRPTKVCDIVGN----LDAVARLGIIARDGN---MPNLILAGPPGTGKTTSILALAHELL-GPNYREAVMELNAS   85 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~----~~~~~~l~~~l~~~~---~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~   85 (331)
                      .+...+++.+|+++++.    ..++..+..++....   ..+++||||+|+|||++|.++++.+. ..+  ..++.++.+
T Consensus       113 ~l~~~~~~~tfd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g--~~v~~~~~~  190 (308)
T 2qgz_A          113 SLPKSYRHIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKG--VSTTLLHFP  190 (308)
T ss_dssp             SSCGGGGSCCGGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSC--CCEEEEEHH
T ss_pred             CCCHHHHhCCHhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcC--CcEEEEEHH
Confidence            34566778999999863    335556667777632   34599999999999999999999885 443  334444332


Q ss_pred             CCCChHhHHHHHHHHHhcccCC---CCCCceEEEEeCCCCCC--HHHHHHHHH-HHHHh-cCCcEEEEeeCC
Q 020071           86 DDRGIDVVRNKIKMFAQKKVTL---PPGKHKVVVLDEADSMT--AGAQQALRR-TMEIY-SNSTRFALACNV  150 (331)
Q Consensus        86 ~~~~~~~i~~~i~~~~~~~~~~---~~~~~~vviide~d~l~--~~~~~~Ll~-~le~~-~~~~~~I~~~~~  150 (331)
                      +.     +.+....+.......   ...+..++||||++...  ...++.|+. +++.. ..+..+|++||.
T Consensus       191 ~l-----~~~l~~~~~~~~~~~~~~~~~~~~lLiiDdig~~~~~~~~~~~ll~~ll~~r~~~~~~~IitSN~  257 (308)
T 2qgz_A          191 SF-----AIDVKNAISNGSVKEEIDAVKNVPVLILDDIGAEQATSWVRDEVLQVILQYRMLEELPTFFTSNY  257 (308)
T ss_dssp             HH-----HHHHHCCCC----CCTTHHHHTSSEEEEETCCC------CTTTTHHHHHHHHHHHTCCEEEEESS
T ss_pred             HH-----HHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHHHCCCcEEEECCC
Confidence            10     111100000000000   00134699999996543  333333443 66543 345678888885

>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=98.90  E-value=5.7e-08  Score=105.01  Aligned_cols=168  Identities=17%  Similarity=0.153  Sum_probs=122.0

Q ss_pred             HHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCC
Q 020071           31 LDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        31 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      ++....+..++..+.  ..++.||+|+|||++++.+++.+     +..++.+||++......+...+..+....      
T Consensus       632 dr~~~tl~~Al~~~~--~~~l~GpaGtGKTe~vk~LA~~l-----g~~~v~~nc~e~ld~~~lg~~~~g~~~~G------  698 (2695)
T 4akg_A          632 LIGFATLTDSLHQKY--GGCFFGPAGTGKTETVKAFGQNL-----GRVVVVFNCDDSFDYQVLSRLLVGITQIG------  698 (2695)
T ss_dssp             HHHHHHHHHHHHTTC--EEEEECCTTSCHHHHHHHHHHTT-----TCCCEEEETTSSCCHHHHHHHHHHHHHHT------
T ss_pred             HHHHHHHHHHHHhCC--CCcccCCCCCCcHHHHHHHHHHh-----CCcEEEEECCCCCChhHhhHHHHHHHhcC------
Confidence            445566677777664  37899999999999999999999     88899999998877777777776665543      


Q ss_pred             CceEEEEeCCCCCCHHHHHHHHH-------HHHH-------------hcCCcEEEEeeCC----CCCCChhhhcccceee
Q 020071          111 KHKVVVLDEADSMTAGAQQALRR-------TMEI-------------YSNSTRFALACNV----SSKIIEPIQSRCAIVR  166 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~-------~le~-------------~~~~~~~I~~~~~----~~~l~~~l~sr~~~i~  166 (331)
                        .++++||++++..+...++..       .+.+             .++++.+++|.|.    ...+++.+++||..+.
T Consensus       699 --aw~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~~Fr~v~  776 (2695)
T 4akg_A          699 --AWGCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSFREFS  776 (2695)
T ss_dssp             --CEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHTTEEEEE
T ss_pred             --CEeeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHhheEEEE
Confidence              499999999999988777633       3321             1245567777773    4689999999999999


Q ss_pred             ecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh-------c------CCCHHHHHHHHHHH
Q 020071          167 FSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFT-------A------DGDMRQALNNLQAT  216 (331)
Q Consensus       167 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~-------~------~g~~r~~~~~l~~~  216 (331)
                      +..|+.+.+.+++..   ..|+...+..+..++..       .      +..+|.+...+..+
T Consensus       777 m~~Pd~~~i~ei~l~---s~Gf~~a~~la~kiv~~~~l~~e~ls~q~hydfglRalksvL~~a  836 (2695)
T 4akg_A          777 MKSPQSGTIAEMILQ---IMGFEDSKSLASKIVHFLELLSSKCSSMNHYHFGLRTLKGVLRNC  836 (2695)
T ss_dssp             CCCCCHHHHHHHHHH---HHHCSSHHHHHHHHHHHHHHHHHHSCCCTTCCCSHHHHHHHHHHH
T ss_pred             eeCCCHHHHHHHHHH---hcCCCchHHHHHHHHHHHHHHHHHhCcCCcccccHHHHHHHHHHH
Confidence            999998888887543   23544455544444321       1      24677777777543

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=98.78  E-value=2.3e-07  Score=88.53  Aligned_cols=179  Identities=13%  Similarity=0.127  Sum_probs=105.9

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHhc--CCCCCCceEEeecCCCCChH---h
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHELL--GPNYREAVMELNASDDRGID---V   92 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~---~   92 (331)
                      -|.....++|++..+..|...+...  ....+.++|++|+|||++|..+++...  ...+...+..++........   .
T Consensus       119 ~P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~  198 (591)
T 1z6t_A          119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK  198 (591)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHH
T ss_pred             CCCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHH
Confidence            3666778999999999999999743  333379999999999999999875320  01111122332222111101   1


Q ss_pred             H------------------------HHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEee
Q 020071           93 V------------------------RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus        93 i------------------------~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~  148 (331)
                      +                        .+.+......     ..++-++||||++..  .       .++..++++.+|+||
T Consensus       199 l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~-----~~~~~LLVLDdv~~~--~-------~l~~l~~~~~ilvTs  264 (591)
T 1z6t_A          199 LQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLR-----KHPRSLLILDDVWDS--W-------VLKAFDSQCQILLTT  264 (591)
T ss_dssp             HHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHH-----TCTTCEEEEEEECCH--H-------HHHTTCSSCEEEEEE
T ss_pred             HHHHHHHhccccccccCCCCCHHHHHHHHHHHHcc-----CCCCeEEEEeCCCCH--H-------HHHHhcCCCeEEEEC
Confidence            1                        1111111110     114679999999752  1       223336678888888


Q ss_pred             CCCCCCChhhhcccceeee---cCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 020071          149 NVSSKIIEPIQSRCAIVRF---SRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       149 ~~~~~l~~~l~sr~~~i~~---~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~  216 (331)
                      ....-. ....  ...+.+   .+++.++..+++...+.... .-.++.+..|++.++|.+-.+......+
T Consensus       265 R~~~~~-~~~~--~~~~~v~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~i~~~~~G~PLal~~~a~~l  331 (591)
T 1z6t_A          265 RDKSVT-DSVM--GPKYVVPVESSLGKEKGLEILSLFVNMKK-ADLPEQAHSIIKECKGSPLVVSLIGALL  331 (591)
T ss_dssp             SCGGGG-TTCC--SCEEEEECCSSCCHHHHHHHHHHHHTSCG-GGSCTHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCcHHH-HhcC--CCceEeecCCCCCHHHHHHHHHHHhCCCc-ccccHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            654311 1111  233333   48999999999988764321 1124567899999999987665554433

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.75  E-value=8.2e-06  Score=89.28  Aligned_cols=168  Identities=14%  Similarity=0.106  Sum_probs=122.9

Q ss_pred             HHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCC
Q 020071           31 LDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        31 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      ++....|..++..+.  ...+.||+|+|||.+++.+++.+     +..++.+||++......+...+....+..      
T Consensus       591 drcy~tl~~Al~~~~--gg~~~GPaGtGKTet~k~La~~l-----gr~~~vfnC~~~~d~~~~g~i~~G~~~~G------  657 (3245)
T 3vkg_A          591 DRCYLTLTQALESRM--GGNPFGPAGTGKTETVKALGSQL-----GRFVLVFCCDEGFDLQAMSRIFVGLCQCG------  657 (3245)
T ss_dssp             HHHHHHHHHHHHTTC--EEEEECSTTSSHHHHHHHHHHHT-----TCCEEEEECSSCCCHHHHHHHHHHHHHHT------
T ss_pred             HHHHHHHHHHHHhcC--CCCCCCCCCCCHHHHHHHHHHHh-----CCeEEEEeCCCCCCHHHHHHHHhhHhhcC------
Confidence            456667777777655  25789999999999999999999     88899999998877777777666666543      


Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHH-------H--------------hcCCcEEEEeeCC----CCCCChhhhccccee
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTME-------I--------------YSNSTRFALACNV----SSKIIEPIQSRCAIV  165 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le-------~--------------~~~~~~~I~~~~~----~~~l~~~l~sr~~~i  165 (331)
                        ...++||++++..+....+...+.       .              ..+++.+++|.|.    ...+++.+++||..+
T Consensus       658 --aW~cfDEfNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~lFr~v  735 (3245)
T 3vkg_A          658 --AWGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKKLFRSM  735 (3245)
T ss_dssp             --CEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHTTEEEE
T ss_pred             --cEEEehhhhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHhhcEEE
Confidence              377999999999887666555443       1              1235667777774    468999999999999


Q ss_pred             eecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHh-------------cCCCHHHHHHHHHHH
Q 020071          166 RFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFT-------------ADGDMRQALNNLQAT  216 (331)
Q Consensus       166 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~-------------~~g~~r~~~~~l~~~  216 (331)
                      .+..|+.+.+.+++.-   ..|+.-....+..++..             .+-.+|.+...|..+
T Consensus       736 ~m~~Pd~~~i~ei~L~---s~Gf~~a~~La~k~~~~~~l~~e~LS~Q~HYDfGLRalKsVL~~A  796 (3245)
T 3vkg_A          736 AMIKPDREMIAQVMLY---SQGFKTAEVLAGKIVPLFKLCQEQLSAQSHYDFGLRALKSVLVSA  796 (3245)
T ss_dssp             ECCSCCHHHHHHHHHH---TTTCSCHHHHHHHHHHHHHHHHHSSCCCTTCCCSHHHHHHHHHHH
T ss_pred             EEeCCCHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHH
Confidence            9999999888887643   45665444444444321             124578888887654

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.71  E-value=2e-07  Score=101.51  Aligned_cols=143  Identities=22%  Similarity=0.258  Sum_probs=101.8

Q ss_pred             HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc-------ccCCC
Q 020071           36 RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK-------KVTLP  108 (331)
Q Consensus        36 ~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~-------~~~~~  108 (331)
                      .+..++..++  ++||+||+|+|||.++..+...+.    +..++.++++.......+...+......       ++..+
T Consensus      1296 ll~~ll~~~~--pvLL~GptGtGKT~li~~~L~~l~----~~~~~~infS~~Tta~~l~~~~e~~~e~~~~~~~G~~~~p 1369 (3245)
T 3vkg_A         1296 VLHAWLSEHR--PLILCGPPGSGKTMTLTSTLRAFP----DFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRP 1369 (3245)
T ss_dssp             HHHHHHHTTC--CCEEESSTTSSHHHHHHHHGGGCT----TEEEEEECCCTTCCHHHHHHHHHHHEEEEECTTSCEEEEE
T ss_pred             HHHHHHHCCC--cEEEECCCCCCHHHHHHHHHHhCC----CCceEEEEeeCCCCHHHHHHHHhhcceEEeccCCCcccCC
Confidence            4555566655  599999999999988877665542    3456788888776666666666543321       11111


Q ss_pred             --CCCceEEEEeCCCCCCH------HHHHHHHHHHHHh------------cCCcEEEEeeCCC-----CCCChhhhcccc
Q 020071          109 --PGKHKVVVLDEADSMTA------GAQQALRRTMEIY------------SNSTRFALACNVS-----SKIIEPIQSRCA  163 (331)
Q Consensus       109 --~~~~~vviide~d~l~~------~~~~~Ll~~le~~------------~~~~~~I~~~~~~-----~~l~~~l~sr~~  163 (331)
                        .+++.|++|||++.-..      ...+.|+.+++..            ..++.+|.++|.+     ..+.+.+.+||.
T Consensus      1370 ~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r~F~ 1449 (3245)
T 3vkg_A         1370 TQLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHAP 1449 (3245)
T ss_dssp             SSTTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHTTCC
T ss_pred             CcCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHhhce
Confidence              25567999999976543      3677788888741            1456788888875     468899999999


Q ss_pred             eeeecCCCHHHHHHHHHHHHH
Q 020071          164 IVRFSRLSDEEILSRLMVVVQ  184 (331)
Q Consensus       164 ~i~~~~~~~~~~~~~l~~~~~  184 (331)
                      ++.++.|+.+++..+...+..
T Consensus      1450 vi~i~~ps~esL~~If~til~ 1470 (3245)
T 3vkg_A         1450 ILLVDFPSTSSLTQIYGTFNR 1470 (3245)
T ss_dssp             EEECCCCCHHHHHHHHHHHHH
T ss_pred             EEEeCCCCHHHHHHHHHHHHH
Confidence            999999999999999766544

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=98.65  E-value=4e-07  Score=86.02  Aligned_cols=175  Identities=16%  Similarity=0.147  Sum_probs=102.3

Q ss_pred             ccCHHHHHHHHHHHHcC---CCCeEEEeCCCCccHHHHHHHHHH---HhcCCCCCCceEEeecCCCC--Ch-HhHHHHHH
Q 020071           28 VGNLDAVARLGIIARDG---NMPNLILAGPPGTGKTTSILALAH---ELLGPNYREAVMELNASDDR--GI-DVVRNKIK   98 (331)
Q Consensus        28 ig~~~~~~~l~~~l~~~---~~~~~ll~G~~G~GKt~la~~l~~---~l~~~~~~~~~~~~~~~~~~--~~-~~i~~~i~   98 (331)
                      +|++..+..+.+++..+   ....+.++|+.|+|||++|+.+++   .-....+. ..+.++.+...  +. ....+++.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~-~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYD-SIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBS-EEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCC-cEEEEEECCCCCCCHHHHHHHHHH
Confidence            49999999999998765   333379999999999999999997   22222221 22333333321  11 12222222


Q ss_pred             HHHhcc----c-C---------------CCCCC-ceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChh
Q 020071           99 MFAQKK----V-T---------------LPPGK-HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEP  157 (331)
Q Consensus        99 ~~~~~~----~-~---------------~~~~~-~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~  157 (331)
                      ......    . .               ...++ +-++|+||++....  . .+.   ..  .++++|+||.... +...
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~--~-~~~---~~--~gs~ilvTTR~~~-v~~~  280 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET--I-RWA---QE--LRLRCLVTTRDVE-ISNA  280 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHH--H-HHH---HH--TTCEEEEEESBGG-GGGG
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchh--h-ccc---cc--CCCEEEEEcCCHH-HHHH
Confidence            222110    0 0               00243 78999999987321  1 111   11  5678888886532 2111


Q ss_pred             hhcccceeeecCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhcCCCHHHHHHH
Q 020071          158 IQSRCAIVRFSRLSDEEILSRLMVVVQEEKV-PYVPEGLEAIIFTADGDMRQALNN  212 (331)
Q Consensus       158 l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~-~i~~~~~~~l~~~~~g~~r~~~~~  212 (331)
                      .......+.+.+++.++..+++.+.+..... .-.++....|++.++|.|-.+...
T Consensus       281 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~  336 (549)
T 2a5y_B          281 ASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMF  336 (549)
T ss_dssp             CCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHH
Confidence            1112256899999999999999886432211 111346788999999988765433

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=98.60  E-value=2.6e-06  Score=88.03  Aligned_cols=182  Identities=15%  Similarity=0.116  Sum_probs=109.2

Q ss_pred             CCCCCCccccCHHHHHHHHHHHHcC--CCCeEEEeCCCCccHHHHHHHHHHHh--cCCCCCCceEEeecCCCCChH---h
Q 020071           20 RPTKVCDIVGNLDAVARLGIIARDG--NMPNLILAGPPGTGKTTSILALAHEL--LGPNYREAVMELNASDDRGID---V   92 (331)
Q Consensus        20 ~p~~~~~~ig~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l--~~~~~~~~~~~~~~~~~~~~~---~   92 (331)
                      -|.....++|++..+..|.+.+...  ....+.|+|+.|+|||++|+.++...  ....+...++.++........   .
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~  198 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK  198 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHH
Confidence            4666778999999999999999643  32237999999999999999887653  111122223333332211110   1


Q ss_pred             HHHHHHHHHh--------------------cccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           93 VRNKIKMFAQ--------------------KKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        93 i~~~i~~~~~--------------------~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      +.........                    ..+ ....++-++|+||++..  .       .++..++++++|+||.+..
T Consensus       199 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~~~LlvlDd~~~~--~-------~~~~~~~~~~ilvTtR~~~  268 (1249)
T 3sfz_A          199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLM-LRKHPRSLLILDDVWDP--W-------VLKAFDNQCQILLTTRDKS  268 (1249)
T ss_dssp             HHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHT-SSSSCSCEEEEESCCCH--H-------HHTTTCSSCEEEEEESSTT
T ss_pred             HHHHHHHhhhhcccccCCCCCHHHHHHHHHHHH-hccCCCEEEEEecCCCH--H-------HHHhhcCCCEEEEEcCCHH
Confidence            1111111110                    000 00123779999999853  1       2233356788888887543


Q ss_pred             CCChhhhcccceeeecC-CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHH
Q 020071          153 KIIEPIQSRCAIVRFSR-LSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL  213 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~~-~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l  213 (331)
                      - ..........+...+ ++.++..+.+...+....-. .++....|++.++|.|-.+....
T Consensus       269 ~-~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~-~~~~~~~i~~~~~glPLal~~~~  328 (1249)
T 3sfz_A          269 V-TDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKED-LPAEAHSIIKECKGSPLVVSLIG  328 (1249)
T ss_dssp             T-TTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSCSTT-CCTHHHHHHHHTTTCHHHHHHHH
T ss_pred             H-HHhhcCCceEEEecCCCCHHHHHHHHHHhhCCChhh-CcHHHHHHHHHhCCCHHHHHHHH
Confidence            2 222223345677775 99999999998876433322 23567889999999886554433

>1jql_B DNA polymerase III, delta subunit; processivity clamp, clamp loader, DNA replication, AAA+ ATPase, transferase; HET: DNA; 2.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.48  E-value=1.7e-06  Score=66.24  Aligned_cols=123  Identities=10%  Similarity=0.067  Sum_probs=86.1

Q ss_pred             HHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC-CceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEE
Q 020071           37 LGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYR-EAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVV  115 (331)
Q Consensus        37 l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~-~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vv  115 (331)
                      +.+.++++-.|.++|||++-.-....+..+.+.+..++.. .+++.+++     ...+.+++..+.+.++   ++++++|
T Consensus         9 l~~~l~~~~~pvyll~G~E~~l~~~~~~~i~~~~~~~~~~e~~~~~~~~-----~~~~~~l~~~~~s~sl---F~~rrlV   80 (140)
T 1jql_B            9 LRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP-----NTDWNAIFSLCQAMSL---FASRQTL   80 (140)
T ss_dssp             HHHHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEECCCCST-----TCCHHHHHHHHHCCCT---TCCCEEE
T ss_pred             HHHHHhccCCceEEEEcCcHHHHHHHHHHHHHHHHHCCCcceeEEEecC-----CCCHHHHHHHHhcCCC---CCCCEEE
Confidence            3444554544447999999878888888887766433211 11222222     2467888888888887   8999999


Q ss_pred             EEeCCCC-CCHHHHHHHHHHHHHhcCCcEEEEeeCCC------CCCChhhhcccceeee
Q 020071          116 VLDEADS-MTAGAQQALRRTMEIYSNSTRFALACNVS------SKIIEPIQSRCAIVRF  167 (331)
Q Consensus       116 iide~d~-l~~~~~~~Ll~~le~~~~~~~~I~~~~~~------~~l~~~l~sr~~~i~~  167 (331)
                      +|.+++. ++.+..+.|..+++.|++++.+|++....      .++.+++.+.+.++.+
T Consensus        81 ~v~~~~~~~~~~~~~~L~~yl~~p~~~~~lvi~~~kld~~~~~~k~~k~l~k~g~~v~~  139 (140)
T 1jql_B           81 LLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             EEECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             EEECCCCCCChHHHHHHHHHHhcCCCCEEEEEEeCCcChhHHhhHHHHHHHhCeEEEEe
Confidence            9999755 66777889999999999999999987542      3466777666666654

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=98.39  E-value=1.7e-06  Score=69.11  Aligned_cols=70  Identities=13%  Similarity=0.274  Sum_probs=49.8

Q ss_pred             CCceEEEEeCC---CCCCHHHHHHHHHHHHHhcCCcEEEEeeC--CCCCCChhhhcc--cceeeecCCCHHHHHHHHHH
Q 020071          110 GKHKVVVLDEA---DSMTAGAQQALRRTMEIYSNSTRFALACN--VSSKIIEPIQSR--CAIVRFSRLSDEEILSRLMV  181 (331)
Q Consensus       110 ~~~~vviide~---d~l~~~~~~~Ll~~le~~~~~~~~I~~~~--~~~~l~~~l~sr--~~~i~~~~~~~~~~~~~l~~  181 (331)
                      .++.++++||+   ..+.....+.+.+++++.  .+.+|+++.  +...+...+.+|  +.++.+.+.+.+++...+.+
T Consensus        98 ~~p~llilDEigp~~~ld~~~~~~l~~~l~~~--~~~~i~~~H~~h~~~~~~~i~~r~~~~i~~~~~~~r~~~~~~l~~  174 (178)
T 1ye8_A           98 DRRKVIIIDEIGKMELFSKKFRDLVRQIMHDP--NVNVVATIPIRDVHPLVKEIRRLPGAVLIELTPENRDVILEDILS  174 (178)
T ss_dssp             CTTCEEEECCCSTTGGGCHHHHHHHHHHHTCT--TSEEEEECCSSCCSHHHHHHHTCTTCEEEECCTTTTTTHHHHHHH
T ss_pred             cCCCEEEEeCCCCcccCCHHHHHHHHHHHhcC--CCeEEEEEccCCCchHHHHHHhcCCcEEEEecCcCHHHHHHHHHH
Confidence            35789999995   345677889999999873  344556663  345667788888  78899988887666555543

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.24  E-value=1.1e-06  Score=71.29  Aligned_cols=116  Identities=10%  Similarity=0.143  Sum_probs=65.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc-----CCCCCCceEEeecCCCC--C-------------h-Hh-HHHHHHHHHhcccC
Q 020071           49 LILAGPPGTGKTTSILALAHELL-----GPNYREAVMELNASDDR--G-------------I-DV-VRNKIKMFAQKKVT  106 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~-----~~~~~~~~~~~~~~~~~--~-------------~-~~-i~~~i~~~~~~~~~  106 (331)
                      .+++|+||+|||++|..+.....     ..+. .++...+..+..  .             . +. -.+....+...+  
T Consensus         8 ~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~-r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~--   84 (199)
T 2r2a_A            8 CLITGTPGSGKTLKMVSMMANDEMFKPDENGI-RRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKKP--   84 (199)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCGGGSCCTTSC-CCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTSG--
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhhcccccCc-eEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhcc--
Confidence            59999999999999988765531     1110 222222221110  0             0 00 001111221112  


Q ss_pred             CCCCCceEEEEeCCCCC--CH-HH--HHHHHHHHHHh-cCCcEEEEeeCCCCCCChhhhcccc-eeeecC
Q 020071          107 LPPGKHKVVVLDEADSM--TA-GA--QQALRRTMEIY-SNSTRFALACNVSSKIIEPIQSRCA-IVRFSR  169 (331)
Q Consensus       107 ~~~~~~~vviide~d~l--~~-~~--~~~Ll~~le~~-~~~~~~I~~~~~~~~l~~~l~sr~~-~i~~~~  169 (331)
                        .+++.+|||||++.+  +. +.  ...++..++.. .....+|++++.+..+...++.|+. .+++.+
T Consensus        85 --~~~~~vliIDEAq~l~~~~~~~~e~~rll~~l~~~r~~~~~iil~tq~~~~l~~~lr~ri~~~~~l~~  152 (199)
T 2r2a_A           85 --ENIGSIVIVDEAQDVWPARSAGSKIPENVQWLNTHRHQGIDIFVLTQGPKLLDQNLRTLVRKHYHIAS  152 (199)
T ss_dssp             --GGTTCEEEETTGGGTSBCCCTTCCCCHHHHGGGGTTTTTCEEEEEESCGGGBCHHHHTTEEEEEEEEE
T ss_pred             --ccCceEEEEEChhhhccCccccchhHHHHHHHHhcCcCCeEEEEECCCHHHHhHHHHHHhheEEEEcC
Confidence              345789999999988  22 11  12344555533 3355788999888899999999975 356665

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.24  E-value=5.9e-07  Score=72.21  Aligned_cols=106  Identities=13%  Similarity=0.093  Sum_probs=57.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC--CChHhHHHH------------HHHHHhcccCCCCCCceE
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD--RGIDVVRNK------------IKMFAQKKVTLPPGKHKV  114 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--~~~~~i~~~------------i~~~~~~~~~~~~~~~~v  114 (331)
                      .+++||+|+|||+++..++..+...+.  .+..+.+...  .+...+...            ...+....    .++..+
T Consensus         6 ~vi~G~~gsGKTT~ll~~~~~~~~~g~--~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~~----~~~~dv   79 (184)
T 2orw_A            6 TVITGPMYSGKTTELLSFVEIYKLGKK--KVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYI----EEDTRG   79 (184)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTC--EEEEEEEC-----CCCEECC----CEECEEESSGGGGGGGC----CTTEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC--eEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHHh----cCCCCE
Confidence            599999999999999777766543322  2222211100  000000000            00011100    235789


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC------CCCChhhhcccc
Q 020071          115 VVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS------SKIIEPIQSRCA  163 (331)
Q Consensus       115 viide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~------~~l~~~l~sr~~  163 (331)
                      |+|||++.++++..+.|..+.+.   +..+|++....      ....+.+.+++.
T Consensus        80 viIDE~Q~~~~~~~~~l~~l~~~---~~~Vi~~Gl~~~f~~~~f~~~~~ll~~ad  131 (184)
T 2orw_A           80 VFIDEVQFFNPSLFEVVKDLLDR---GIDVFCAGLDLTHKQNPFETTALLLSLAD  131 (184)
T ss_dssp             EEECCGGGSCTTHHHHHHHHHHT---TCEEEEEEESBCTTSCBCHHHHHHHHHCS
T ss_pred             EEEECcccCCHHHHHHHHHHHHC---CCCEEEEeeccccccCCccchHHHHHHhh
Confidence            99999999987777777667664   55666655422      233355666653

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=98.23  E-value=6e-05  Score=74.87  Aligned_cols=142  Identities=18%  Similarity=0.204  Sum_probs=82.1

Q ss_pred             cccCHHHHHHHHHHHHcC-CCCeEEEeCCCCccHHHHHHHHHHHh-cCCCCCCceEEeecCCCCChHhHHHH--------
Q 020071           27 IVGNLDAVARLGIIARDG-NMPNLILAGPPGTGKTTSILALAHEL-LGPNYREAVMELNASDDRGIDVVRNK--------   96 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~-~~~~~ll~G~~G~GKt~la~~l~~~l-~~~~~~~~~~~~~~~~~~~~~~i~~~--------   96 (331)
                      .+|++..+..|.+.+... ..+.+.++|+.|+|||++|+.+++.. ....+...++.++.+.......+...        
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i  209 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI  209 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhc
Confidence            399999999999998763 33347999999999999999998531 00011222233333222222111111        


Q ss_pred             ------------------------HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071           97 ------------------------IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus        97 ------------------------i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                                              +......    ..+++-+||+||++.  .+..+    .+   ++++++|+||.+..
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~----l~~KRvLLVLDDVwd--~eqLe----~f---~pGSRILVTTRd~~  276 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKS----KPYENCLLVLLNVQN--AKAWN----AF---NLSCKILLTTRFKQ  276 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHH----STTSSCEEEEESCCC--HHHHH----HH---HSSCCEEEECSCSH
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHh----hcCCCEEEEEeCcCh--HHHHH----hh---CCCeEEEEeccChH
Confidence                                    1111100    134678999999988  22222    22   36788888886543


Q ss_pred             CCChhhhcccceeeec------CCCHHHHHHHHHHHH
Q 020071          153 KIIEPIQSRCAIVRFS------RLSDEEILSRLMVVV  183 (331)
Q Consensus       153 ~l~~~l~sr~~~i~~~------~~~~~~~~~~l~~~~  183 (331)
                      .. ..+.. ...+.++      +++.++..+++.+..
T Consensus       277 Va-~~l~g-~~vy~LeL~d~dL~LS~eEA~eLF~~~~  311 (1221)
T 1vt4_I          277 VT-DFLSA-ATTTHISLDHHSMTLTPDEVKSLLLKYL  311 (1221)
T ss_dssp             HH-HHHHH-HSSCEEEECSSSSCCCHHHHHHHHHHHH
T ss_pred             HH-HhcCC-CeEEEecCccccCCcCHHHHHHHHHHHc
Confidence            11 11111 1234444      899999999998874

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=98.03  E-value=1.3e-05  Score=66.17  Aligned_cols=93  Identities=13%  Similarity=0.163  Sum_probs=54.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC----------CCCh-------HhHHHHHHHHHhcccCCCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD----------DRGI-------DVVRNKIKMFAQKKVTLPPGK  111 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~----------~~~~-------~~i~~~i~~~~~~~~~~~~~~  111 (331)
                      ++++||+|+|||+++..++..+...+..  +..+.+..          ..+.       ....+..........   ..+
T Consensus        15 ~litG~mGsGKTT~ll~~~~r~~~~g~k--Vli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~---~~~   89 (223)
T 2b8t_A           15 EFITGPMFAGKTAELIRRLHRLEYADVK--YLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSF---NDE   89 (223)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCC--EEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTS---CTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcCCE--EEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhh---CCC
Confidence            5999999999999999988887544322  22221111          0010       111122222222111   345


Q ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          112 HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      ..+|+|||++.++.+..+.+.. +.+.  ++.+|++..
T Consensus        90 ~dvViIDEaQ~l~~~~ve~l~~-L~~~--gi~Vil~Gl  124 (223)
T 2b8t_A           90 TKVIGIDEVQFFDDRICEVANI-LAEN--GFVVIISGL  124 (223)
T ss_dssp             CCEEEECSGGGSCTHHHHHHHH-HHHT--TCEEEEECC
T ss_pred             CCEEEEecCccCcHHHHHHHHH-HHhC--CCeEEEEec
Confidence            7899999999998775555544 3332  677888765

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=97.93  E-value=5.2e-05  Score=65.58  Aligned_cols=69  Identities=17%  Similarity=0.244  Sum_probs=38.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA  125 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~  125 (331)
                      ++|+||||+|||+++..++...   +....|+.+...+...  .....+.+..+.....   .. . +||||+++.+..
T Consensus       126 iLI~GpPGsGKTtLAlqlA~~~---G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~---~~-~-LLVIDsI~aL~~  196 (331)
T 2vhj_A          126 VIVTGKGNSGKTPLVHALGEAL---GGKDKYATVRFGEPLSGYNTDFNVFVDDIARAML---QH-R-VIVIDSLKNVIG  196 (331)
T ss_dssp             EEEECSCSSSHHHHHHHHHHHH---HTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHH---HC-S-EEEEECCTTTC-
T ss_pred             EEEEcCCCCCHHHHHHHHHHhC---CCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHh---hC-C-EEEEeccccccc
Confidence            6999999999999999999862   1133345541111000  0122222222222111   11 2 999999998843

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.90  E-value=4.8e-05  Score=61.01  Aligned_cols=107  Identities=17%  Similarity=0.153  Sum_probs=69.2

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC-CCCh-----------------------------HhHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD-DRGI-----------------------------DVVRNKI   97 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~-~~~~-----------------------------~~i~~~i   97 (331)
                      .+++|+++|.|||++|..++-...+.+...-++.+.... ..+.                             ......+
T Consensus        30 ~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~~l  109 (196)
T 1g5t_A           30 IIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAVW  109 (196)
T ss_dssp             CEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHHHH
Confidence            489999999999999999999887766555555443321 0000                             0111122


Q ss_pred             HHHHhcccCCCCCCceEEEEeCC------CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccc
Q 020071           98 KMFAQKKVTLPPGKHKVVVLDEA------DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCA  163 (331)
Q Consensus        98 ~~~~~~~~~~~~~~~~vviide~------d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~  163 (331)
                      ......   ...+++.+||+||+      +.++.   +.++.++.+.|.+.-+|+|++..   ++.|...+.
T Consensus       110 ~~a~~~---l~~~~yDlvILDEi~~al~~g~l~~---~ev~~~l~~Rp~~~~vIlTGr~a---p~~l~e~AD  172 (196)
T 1g5t_A          110 QHGKRM---LADPLLDMVVLDELTYMVAYDYLPL---EEVISALNARPGHQTVIITGRGC---HRDILDLAD  172 (196)
T ss_dssp             HHHHHH---TTCTTCSEEEEETHHHHHHTTSSCH---HHHHHHHHTSCTTCEEEEECSSC---CHHHHHHCS
T ss_pred             HHHHHH---HhcCCCCEEEEeCCCccccCCCCCH---HHHHHHHHhCcCCCEEEEECCCC---cHHHHHhCc
Confidence            222222   22567899999998      45554   46888899888899999999864   445555543

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=97.82  E-value=0.0001  Score=61.53  Aligned_cols=109  Identities=15%  Similarity=0.173  Sum_probs=60.8

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc-c--c-
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK-K--V-  105 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~-~--~-  105 (331)
                      .+.....+..++..+   +++++||+|+|||.++..++...     ...++.+.+... -..++.+.+..+... .  + 
T Consensus        95 ~~~Q~~ai~~~~~~~---~~ll~~~tG~GKT~~a~~~~~~~-----~~~~liv~P~~~-L~~q~~~~~~~~~~~~v~~~~  165 (237)
T 2fz4_A           95 RDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINEL-----STPTLIVVPTLA-LAEQWKERLGIFGEEYVGEFS  165 (237)
T ss_dssp             CHHHHHHHHHHTTTS---EEEEEESSSTTHHHHHHHHHHHS-----CSCEEEEESSHH-HHHHHHHHHGGGCGGGEEEES
T ss_pred             CHHHHHHHHHHHhCC---CEEEEeCCCCCHHHHHHHHHHHc-----CCCEEEEeCCHH-HHHHHHHHHHhCCCCeEEEEe
Confidence            455555555555442   48999999999999999888876     333444433211 122222222221000 0  0 


Q ss_pred             ---------------------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          106 ---------------------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       106 ---------------------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                                           ........+|||||+|.+.......   +++..+...++.++++.
T Consensus       166 g~~~~~~~i~v~T~~~l~~~~~~~~~~~~llIiDEaH~l~~~~~~~---i~~~~~~~~~l~LSATp  228 (237)
T 2fz4_A          166 GRIKELKPLTVSTYDSAYVNAEKLGNRFMLLIFDEVHHLPAESYVQ---IAQMSIAPFRLGLTATF  228 (237)
T ss_dssp             SSCBCCCSEEEEEHHHHHHTHHHHTTTCSEEEEECSSCCCTTTHHH---HHHTCCCSEEEEEEESC
T ss_pred             CCCCCcCCEEEEeHHHHHhhHHHhcccCCEEEEECCccCCChHHHH---HHHhccCCEEEEEecCC
Confidence                                 0001346899999999998654443   44443455566666654

>3ctd_A Putative ATPase, AAA family; structural genomics, unknown function, PSI-2, protein structure initiative; 2.50A {Prochlorococcus marinus subsp} SCOP: a.80.1.2

Probab=97.72  E-value=0.00047  Score=54.95  Aligned_cols=88  Identities=15%  Similarity=0.089  Sum_probs=62.7

Q ss_pred             CCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccChHhHHHHHHHHHHHHHHHhcCCCchH
Q 020071          234 QPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAEHLKLEFMKEAGFAHMRICDGVGSYL  312 (331)
Q Consensus       234 ~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l  312 (331)
                      ..+++.+..+++++.+.|.+.|+.|+.+|+..|++|..|.+.|.+++.+ +|+.+.....+.....++-.+|..- ..++
T Consensus        33 d~HYd~ISAf~KSiRGSDpDAALywLaRMl~~GEDp~~IaRRLvi~AsEDIGlAdP~Al~~a~aa~~a~~~iG~P-E~~i  111 (213)
T 3ctd_A           33 QNHFDVISAFIKSIRGSDPDATLYWLANMVEAGEDPNFIFRRLLISACEDIGLADPNAIVVVQSCCDAFDRVGFP-EGLF  111 (213)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTGGGSTTHHHHHHHHHHHHHHHCTT-TTHH
T ss_pred             hHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhCCC-HHHH
Confidence            3567889999999999999999999999999999999999999988776 6764444444444444444444321 4444


Q ss_pred             HHHHHHHHHH
Q 020071          313 QLCGLLAKLS  322 (331)
Q Consensus       313 ~l~~l~~~l~  322 (331)
                      .|...+.-|+
T Consensus       112 ~LaqaviyLA  121 (213)
T 3ctd_A          112 FLSQASLYLA  121 (213)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5544444444

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.68  E-value=7.7e-05  Score=70.51  Aligned_cols=112  Identities=19%  Similarity=0.213  Sum_probs=65.1

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH-------HHHHh
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI-------KMFAQ  102 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i-------~~~~~  102 (331)
                      .+.....+...+.+   +.++++|+||||||+++..++..+...+  ..+..+.+ .......+.+.+       ..+..
T Consensus       191 ~~~Q~~Av~~~~~~---~~~~I~G~pGTGKTt~i~~l~~~l~~~g--~~Vl~~Ap-T~~Aa~~L~e~~~~~a~Tih~ll~  264 (574)
T 3e1s_A          191 SEEQASVLDQLAGH---RLVVLTGGPGTGKSTTTKAVADLAESLG--LEVGLCAP-TGKAARRLGEVTGRTASTVHRLLG  264 (574)
T ss_dssp             CHHHHHHHHHHTTC---SEEEEECCTTSCHHHHHHHHHHHHHHTT--CCEEEEES-SHHHHHHHHHHHTSCEEEHHHHTT
T ss_pred             CHHHHHHHHHHHhC---CEEEEEcCCCCCHHHHHHHHHHHHHhcC--CeEEEecC-cHHHHHHhHhhhcccHHHHHHHHc
Confidence            45555555555432   3479999999999999999998775442  23333322 111112222211       11111


Q ss_pred             cc---cC---CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          103 KK---VT---LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       103 ~~---~~---~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..   +.   ....+..+|||||+..++......|++.+   +..+++|++...
T Consensus       265 ~~~~~~~~~~~~~~~~dvlIIDEasml~~~~~~~Ll~~~---~~~~~lilvGD~  315 (574)
T 3e1s_A          265 YGPQGFRHNHLEPAPYDLLIVDEVSMMGDALMLSLLAAV---PPGARVLLVGDT  315 (574)
T ss_dssp             EETTEESCSSSSCCSCSEEEECCGGGCCHHHHHHHHTTS---CTTCEEEEEECT
T ss_pred             CCcchhhhhhcccccCCEEEEcCccCCCHHHHHHHHHhC---cCCCEEEEEecc
Confidence            00   00   01224689999999999988777666554   356788888754

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.67  E-value=0.00015  Score=57.37  Aligned_cols=20  Identities=30%  Similarity=0.511  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      ++|.|+||+||||+++.+++
T Consensus         5 I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            5 ILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHh
Confidence            79999999999999999998

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.58  E-value=0.00019  Score=58.85  Aligned_cols=126  Identities=20%  Similarity=0.251  Sum_probs=72.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcc-------------cCC---CCCCc
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKK-------------VTL---PPGKH  112 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~-------------~~~---~~~~~  112 (331)
                      +++.|++|+|||+++..++..+...+...-++.++....   ......+......+             ...   ...++
T Consensus         9 I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~---~~~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~L~~~p   85 (228)
T 2r8r_A            9 VFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGR---AETEALLNGLPQQPLLRTEYRGMTLEEMDLDALLKAAP   85 (228)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTC---HHHHHHHTTSCBCCCEEEEETTEEEEECCHHHHHHHCC
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCC---hhHHHHhcCccccCcceeecCCcccccccHHHHHhcCC
Confidence            899999999999999999998865544433344433111   11111111100000             000   00135


Q ss_pred             eEEEEeCCCCCCHH------HHHHHHHHHHHhcCCcEEEEeeCC------------------CCCCChhhhcccceeeec
Q 020071          113 KVVVLDEADSMTAG------AQQALRRTMEIYSNSTRFALACNV------------------SSKIIEPIQSRCAIVRFS  168 (331)
Q Consensus       113 ~vviide~d~l~~~------~~~~Ll~~le~~~~~~~~I~~~~~------------------~~~l~~~l~sr~~~i~~~  168 (331)
                      .++||||+...+..      ..+-+..   ..+...-++.++|-                  .+.++..+..++..+.+=
T Consensus        86 dlvIVDElG~~~~~~~r~~~~~qDV~~---~l~sgidVitT~Nlqh~esl~d~v~~itg~~v~e~vpd~~~~~a~~v~lv  162 (228)
T 2r8r_A           86 SLVLVDELAHTNAPGSRHTKRWQDIQE---LLAAGIDVYTTVNVQHLESLNDQVRGITGVQVRETLPDWVLQEAFDLVLI  162 (228)
T ss_dssp             SEEEESCTTCBCCTTCSSSBHHHHHHH---HHHTTCEEEEEEEGGGBGGGHHHHHHHHSCCCCSCBCHHHHHTCSEEEEB
T ss_pred             CEEEEeCCCCCCcccchhHHHHHHHHH---HHcCCCCEEEEccccccccHHHHHHHHcCCCcCCcCccHHHhhCCeEEEe
Confidence            79999998765321      1222222   33455667777652                  245677777888777777


Q ss_pred             CCCHHHHHHHHH
Q 020071          169 RLSDEEILSRLM  180 (331)
Q Consensus       169 ~~~~~~~~~~l~  180 (331)
                      -++++++.+.+.
T Consensus       163 D~~p~~l~~rl~  174 (228)
T 2r8r_A          163 DLPPRELLERLR  174 (228)
T ss_dssp             CCCHHHHHHHHH
T ss_pred             cCCHHHHHHHHH
Confidence            788888777654

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=97.53  E-value=0.00044  Score=58.50  Aligned_cols=23  Identities=48%  Similarity=0.609  Sum_probs=21.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|+|++|+||||+++.+++.+
T Consensus         6 lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            6 LIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            47999999999999999999985

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.52  E-value=0.0023  Score=52.25  Aligned_cols=22  Identities=36%  Similarity=0.569  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            3 LVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999987

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=97.48  E-value=0.00025  Score=67.60  Aligned_cols=99  Identities=20%  Similarity=0.233  Sum_probs=55.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCC--CCCCceEEeecCCCCChHhHHHHHHHHHh--------------cccC-----
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGP--NYREAVMELNASDDRGIDVVRNKIKMFAQ--------------KKVT-----  106 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~--~~~~~~~~~~~~~~~~~~~i~~~i~~~~~--------------~~~~-----  106 (331)
                      .++++|++|||||+++..+...+...  ..+..+..+. +.......+.+.+.....              ...+     
T Consensus       166 ~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~A-PTg~AA~~L~e~~~~~~~~l~l~~~~~~~~~~~~~Tih~ll  244 (608)
T 1w36_D          166 ISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAA-PTGKAAARLTESLGKALRQLPLTDEQKKRIPEDASTLHRLL  244 (608)
T ss_dssp             EEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEB-SSHHHHHHHHHHHTHHHHHSSCCSCCCCSCSCCCBTTTSCC
T ss_pred             CEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEEe-CChhHHHHHHHHHHHHHhcCCCCHHHHhccchhhhhhHhhh
Confidence            48999999999999999888776421  1122232222 221122223222221100              0000     


Q ss_pred             -------------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          107 -------------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       107 -------------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                                   ....+..++||||++.++......|++.   .+.++++|++...
T Consensus       245 ~~~~~~~~~~~~~~~~l~~d~lIIDEAsml~~~~~~~Ll~~---l~~~~~liLvGD~  298 (608)
T 1w36_D          245 GAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMSRLIDA---LPDHARVIFLGDR  298 (608)
T ss_dssp             -----------CTTSCCSCSEEEECSGGGCBHHHHHHHHHT---CCTTCEEEEEECT
T ss_pred             ccCCCchHHHhccCCCCCCCEEEEechhhCCHHHHHHHHHh---CCCCCEEEEEcch
Confidence                         0011457999999998886655555544   4567888888754

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=97.46  E-value=0.00033  Score=56.93  Aligned_cols=96  Identities=10%  Similarity=0.086  Sum_probs=51.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC--CChHhHHHHHHHHHh--------cccCCCCCCceEEEEe
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD--RGIDVVRNKIKMFAQ--------KKVTLPPGKHKVVVLD  118 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--~~~~~i~~~i~~~~~--------~~~~~~~~~~~vviid  118 (331)
                      .+++|+.|+|||+.+...+..+...+  ..++.+.+...  .+...+...+.....        ..+....++..+|+||
T Consensus        31 ~vitG~MgsGKTT~lL~~a~r~~~~g--~kVli~k~~~d~R~ge~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~dvViID  108 (214)
T 2j9r_A           31 EVICGSMFSGKSEELIRRVRRTQFAK--QHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSASKDIFKHITEEMDVIAID  108 (214)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTT--CCEEEEECC-----------------CCEEECSSGGGGGGGCCSSCCEEEEC
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCC--CEEEEEEeccCCcchHHHHHhhcCCeeEEeecCCHHHHHHHHhcCCCEEEEE
Confidence            48999999999999988888775443  33333333211  111111111110000        0000001246899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          119 EADSMTAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       119 e~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      |++.++++..+.+..+. +  .+..+|++.-
T Consensus       109 EaQF~~~~~V~~l~~l~-~--~~~~Vi~~Gl  136 (214)
T 2j9r_A          109 EVQFFDGDIVEVVQVLA-N--RGYRVIVAGL  136 (214)
T ss_dssp             CGGGSCTTHHHHHHHHH-H--TTCEEEEEEC
T ss_pred             CcccCCHHHHHHHHHHh-h--CCCEEEEEec
Confidence            99999877664443333 2  3677888764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.45  E-value=0.00032  Score=74.22  Aligned_cols=37  Identities=27%  Similarity=0.260  Sum_probs=27.2

Q ss_pred             HHHHHH-cCC--CCeEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           37 LGIIAR-DGN--MPNLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        37 l~~~l~-~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      |..++. .|-  ...++|+||||+|||++|.+++......
T Consensus      1415 LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~ 1454 (2050)
T 3cmu_A         1415 LDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE 1454 (2050)
T ss_dssp             HHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             HHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            555555 331  1238999999999999999998876544

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.43  E-value=0.0027  Score=51.78  Aligned_cols=20  Identities=35%  Similarity=0.376  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      ++++||+|+|||+++..++.
T Consensus        23 ~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           23 TQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            69999999999999999998

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.42  E-value=0.00044  Score=54.24  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=19.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+ +.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHT
T ss_pred             EEEEECCCCCCHHHHHHHH-HHC
Confidence            3799999999999999999 666

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=97.40  E-value=0.00013  Score=58.64  Aligned_cols=90  Identities=18%  Similarity=0.262  Sum_probs=50.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC---------CC-------hHhHHHHHHHHHhcccCCCCCCc
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD---------RG-------IDVVRNKIKMFAQKKVTLPPGKH  112 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---------~~-------~~~i~~~i~~~~~~~~~~~~~~~  112 (331)
                      .+++||.|+|||+.+..++..+...+...-++.......         .+       .....+.....        .++.
T Consensus        11 ~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~~~~~i~s~~g~~~~a~~~~~~~~i~~~~--------~~~~   82 (191)
T 1xx6_A           11 EVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKYF--------EEDT   82 (191)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHHC--------CTTC
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccchHHHHHhhcCCceeeEeeCCHHHHHHHH--------hccC
Confidence            599999999999999888888754332222221000000         00       00011111110        1246


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          113 KVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       113 ~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      .+|+|||++.++++..+.+..+.+   .+..+|++.-
T Consensus        83 dvViIDEaqfl~~~~v~~l~~l~~---~~~~Vi~~Gl  116 (191)
T 1xx6_A           83 EVIAIDEVQFFDDEIVEIVNKIAE---SGRRVICAGL  116 (191)
T ss_dssp             SEEEECSGGGSCTHHHHHHHHHHH---TTCEEEEEEC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh---CCCEEEEEec
Confidence            799999999998766554444333   3567777754

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=97.38  E-value=0.0004  Score=56.58  Aligned_cols=39  Identities=21%  Similarity=0.216  Sum_probs=27.5

Q ss_pred             cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           29 GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      -.+.....+...+..   .++++++|+|+|||.++...+...
T Consensus        34 l~~~Q~~~i~~~~~~---~~~li~~~tGsGKT~~~~~~~~~~   72 (216)
T 3b6e_A           34 LRPYQMEVAQPALEG---KNIIICLPTGSGKTRVAVYIAKDH   72 (216)
T ss_dssp             CCHHHHHHHHHHHTT---CCEEEECSCHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHhcC---CCEEEEcCCCCCHHHHHHHHHHHH
Confidence            345555555555543   258999999999999888777654

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.36  E-value=0.00057  Score=54.19  Aligned_cols=23  Identities=35%  Similarity=0.538  Sum_probs=17.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus         7 ~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            7 IIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             EEEEECCC----CHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            37999999999999999999987

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=97.35  E-value=0.0005  Score=65.39  Aligned_cols=42  Identities=21%  Similarity=0.266  Sum_probs=29.3

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      |.+++..+...+.++. .++++++|+|+|||..+..++..+..
T Consensus       183 Q~~ai~~~~~~~~~~~-~~~ll~~~TGsGKT~~~~~~~~~l~~  224 (590)
T 3h1t_A          183 QQIAINRAVQSVLQGK-KRSLITMATGTGKTVVAFQISWKLWS  224 (590)
T ss_dssp             HHHHHHHHHHHHHTTC-SEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC-CceEEEecCCCChHHHHHHHHHHHHh
Confidence            3444444444555554 35899999999999998888877643

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.35  E-value=0.00088  Score=53.69  Aligned_cols=71  Identities=20%  Similarity=0.254  Sum_probs=43.7

Q ss_pred             CCCceEEEEeCCCCC---CHHHHHHHHHHHHHhcCCcEEEE-ee--CCC-CCCChhhhcc--cceeeecCCCHHHHHHHH
Q 020071          109 PGKHKVVVLDEADSM---TAGAQQALRRTMEIYSNSTRFAL-AC--NVS-SKIIEPIQSR--CAIVRFSRLSDEEILSRL  179 (331)
Q Consensus       109 ~~~~~vviide~d~l---~~~~~~~Ll~~le~~~~~~~~I~-~~--~~~-~~l~~~l~sr--~~~i~~~~~~~~~~~~~l  179 (331)
                      ..++.++++||++.+   .....++|.++++.+.  ..++. ++  .+. ..+.+.+..+  +.++.+.+-+.+.+..-+
T Consensus       103 ~~~~dvlilDE~g~~~~~~~~~~~~l~~~l~~~~--~~ilgti~vsh~~~~~~vd~i~~~~~~~i~~~~~~nr~~~~~~i  180 (189)
T 2i3b_A          103 GPGQRVCVIDEIGKMELFSQLFIQAVRQTLSTPG--TIILGTIPVPKGKPLALVEEIRNRKDVKVFNVTKENRNHLLPDI  180 (189)
T ss_dssp             SSCCCCEEECCCSTTTTTCSHHHHHHHHHHHCSS--CCEEEECCCCCSSCCTTHHHHHTTCCSEEEECCSSSGGGHHHHH
T ss_pred             ccCCCEEEEeCCCccccccHHHHHHHHHHHhCCC--cEEEEEeecCCCCchHHHHHHeecCCcEEEEeChHhHHHHHHHH
Confidence            356789999997666   3456778888887542  23321 22  222 2566777664  577888776666555554


Q ss_pred             HH
Q 020071          180 MV  181 (331)
Q Consensus       180 ~~  181 (331)
                      ..
T Consensus       181 ~~  182 (189)
T 2i3b_A          181 VT  182 (189)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.33  E-value=0.0047  Score=51.54  Aligned_cols=23  Identities=39%  Similarity=0.631  Sum_probs=21.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.||+|+||||+++.+++.+
T Consensus        31 ~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           31 RYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999999988

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=97.32  E-value=0.01  Score=55.38  Aligned_cols=69  Identities=22%  Similarity=0.196  Sum_probs=49.8

Q ss_pred             ceEEEEeCCCCCC----HHHHHHHHHHHHHhc-CCcEEEEeeCCCC--CCChhhhcccce-eeecCCCHHHHHHHHH
Q 020071          112 HKVVVLDEADSMT----AGAQQALRRTMEIYS-NSTRFALACNVSS--KIIEPIQSRCAI-VRFSRLSDEEILSRLM  180 (331)
Q Consensus       112 ~~vviide~d~l~----~~~~~~Ll~~le~~~-~~~~~I~~~~~~~--~l~~~l~sr~~~-i~~~~~~~~~~~~~l~  180 (331)
                      +-+|||||++.+.    .+....|.++..... ..+.+|+++..+.  .+...+++.+.. +.|.--+..+...++.
T Consensus       344 ~ivvVIDE~~~L~~~~~~~~~~~L~~Iar~GRa~GIhLIlaTQRPs~d~I~~~Iran~~~RI~lrv~s~~Dsr~ILd  420 (574)
T 2iut_A          344 TIVVVVDEFADMMMIVGKKVEELIARIAQKARAAGIHLILATQRPSVDVITGLIKANIPTRIAFQVSSKIDSRTILD  420 (574)
T ss_dssp             EEEEEESCCTTHHHHTCHHHHHHHHHHHHHCTTTTEEEEEEESCCCTTTSCHHHHHTCCEEEEECCSCHHHHHHHHS
T ss_pred             cEEEEEeCHHHHhhhhhHHHHHHHHHHHHHHhhCCeEEEEEecCcccccccHHHHhhhccEEEEEcCCHHHHHHhcC
Confidence            5699999998773    344555666666543 4677888887776  677888888754 6788788888877763

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=97.32  E-value=0.0015  Score=53.57  Aligned_cols=97  Identities=13%  Similarity=0.130  Sum_probs=53.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc-ccCC------CCCCceEEEEeCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK-KVTL------PPGKHKVVVLDEAD  121 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~-~~~~------~~~~~~vviide~d  121 (331)
                      .+++|+-|+|||+.+...+......+...-++........+ ..+...+...... +...      ..++..+|+|||++
T Consensus        22 ~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~Ryg-~~i~sr~G~~~~a~~i~~~~di~~~~~~~dvViIDEaQ  100 (234)
T 2orv_A           22 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDEGQ  100 (234)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCCCC------------CEEEEESSGGGGHHHHTTCSEEEESSGG
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCccch-HHHHhhcCCeeEEEecCCHHHHHHHhccCCEEEEEchh
Confidence            49999999999988877777665543332222222222222 2222111000000 0000      00346799999999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          122 SMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       122 ~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+..  ...+.+.+.+  .+..+|++.-+
T Consensus       101 F~~~--v~el~~~l~~--~gi~VI~~GL~  125 (234)
T 2orv_A          101 FFPD--IVEFCEAMAN--AGKTVIVAALD  125 (234)
T ss_dssp             GCTT--HHHHHHHHHH--TTCEEEEECCS
T ss_pred             hhhh--HHHHHHHHHh--CCCEEEEEecc
Confidence            9974  6777788877  56778887654

>2r9g_A AAA ATPase, central region; structural genomics, PSI-2, protein structure initia YORK SGX research center for structural genomics, nysgxrc; 2.09A {Enterococcus faecium} SCOP: a.80.1.2 PDB: 2qw6_A

Probab=97.32  E-value=0.0039  Score=49.31  Aligned_cols=88  Identities=15%  Similarity=0.129  Sum_probs=61.7

Q ss_pred             CCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccChHhHHHHHHHHHHHHHHHhcCCCch
Q 020071          233 DQPHPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAEHLKLEFMKEAGFAHMRICDGVGSY  311 (331)
Q Consensus       233 ~~~~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~~~~~~~~~~l~~~~~~l~~~~~~~  311 (331)
                      +...++.+..+++++.+.|.+.|+.|+.+|+..| +|..|.+.|..++.+ +|+.+.....+.....++-.+|..- ..+
T Consensus        11 Gd~HYd~iSAf~KSiRGSDpDAAly~LaRml~~G-Dp~~IaRRLvi~AsEDIGlAdP~Al~~a~aa~~a~~~iG~P-E~~   88 (204)
T 2r9g_A           11 GDAHYDVISAFQKSIRGSDVDAALHYLARLVEAG-DLASICRRLMVIGYEDIGLGNPAAAARTVNAVLAAEKLGLP-EAR   88 (204)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHTTGGGCHHHHHHHHHHHHHHHHHCTT-TTH
T ss_pred             chhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhCCC-HHH
Confidence            4566788999999999999999999999999999 999999999887765 6764444444444444444444321 344


Q ss_pred             HHHHHHHHHHH
Q 020071          312 LQLCGLLAKLS  322 (331)
Q Consensus       312 l~l~~l~~~l~  322 (331)
                      +.|...+.-|+
T Consensus        89 i~LaqaviyLA   99 (204)
T 2r9g_A           89 IPLADVVVDLC   99 (204)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            44444444443

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.31  E-value=0.0027  Score=51.76  Aligned_cols=22  Identities=32%  Similarity=0.599  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            3 IVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999988

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.29  E-value=0.0021  Score=52.26  Aligned_cols=22  Identities=50%  Similarity=0.807  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||||+||+|.|+.+++.+
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999988

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=97.29  E-value=0.0053  Score=50.13  Aligned_cols=43  Identities=14%  Similarity=0.216  Sum_probs=28.2

Q ss_pred             CCCceEEEEeCCCCCC--HHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          109 PGKHKVVVLDEADSMT--AGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       109 ~~~~~vviide~d~l~--~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      ....+++|+||+|.+.  ......+..++...+.+..+++.|...
T Consensus       156 ~~~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~  200 (220)
T 1t6n_A          156 LKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL  200 (220)
T ss_dssp             CTTCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEESCC
T ss_pred             cccCCEEEEcCHHHHhcccCcHHHHHHHHHhCCCcCeEEEEEeec
Confidence            3456899999999874  344455666666656566666655443

>3bge_A Predicted ATPase; structural genomics, predicted AAA+ATPase C-terminal fragmen protein structure initiative; 1.85A {Haemophilus influenzae} SCOP: a.80.1.2

Probab=97.24  E-value=0.0018  Score=51.05  Aligned_cols=50  Identities=14%  Similarity=0.075  Sum_probs=45.4

Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-ccc
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEM  285 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~  285 (331)
                      .++.+..+++++.+.|.+.|+.|+.+|+..|++|..|.+.|..++.+ +|+
T Consensus         7 HYd~ISAf~KSiRGSDpDAAly~LaRMl~~GEDp~~IaRRLvi~AsEDIGl   57 (201)
T 3bge_A            7 FYDLISALHKSVRGSAPDAALYWYARILTAGGDPLYVARRLLAIASEDVGN   57 (201)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTGG
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccC
Confidence            45788999999999999999999999999999999999999987766 665

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=97.23  E-value=0.002  Score=53.50  Aligned_cols=20  Identities=35%  Similarity=0.595  Sum_probs=16.1

Q ss_pred             eEEEeCCCCccHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALA   67 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~   67 (331)
                      .+++.||+|+|||++...+.
T Consensus        78 ~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           78 VVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCcHHhHHHHH
Confidence            48999999999997655443

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.17  E-value=0.0022  Score=52.21  Aligned_cols=107  Identities=22%  Similarity=0.367  Sum_probs=57.6

Q ss_pred             CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC--CCceE-------EeecCCCCChHhHHHHHHHHHhcccCCCCCCceE
Q 020071           44 GNMPNLILAGPPGTGKTTSILALAHELLGPNY--REAVM-------ELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKV  114 (331)
Q Consensus        44 ~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~--~~~~~-------~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~v  114 (331)
                      ...+++++.|++|+|||+++..+.........  ..+.+       .+.-.+..|.+..+.....+......  ....-+
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~--~~~~~i   87 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAK--FVKGLI   87 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGG--GEEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEeeCceEEEEECCCcHHHHHHHHHHHHhccc--cCCEEE
Confidence            34556999999999999999999986533210  01111       11111222333333444443332110  123457


Q ss_pred             EEEeCC---CCCCHHHHHHHHHHHHH----hcCCcEEEEeeCCCCC
Q 020071          115 VVLDEA---DSMTAGAQQALRRTMEI----YSNSTRFALACNVSSK  153 (331)
Q Consensus       115 viide~---d~l~~~~~~~Ll~~le~----~~~~~~~I~~~~~~~~  153 (331)
                      +++|-.   +.+ ......+..++..    .+.++++|++.|....
T Consensus        88 ~v~D~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  132 (218)
T 1nrj_B           88 FMVDSTVDPKKL-TTTAEFLVDILSITESSCENGIDILIACNKSEL  132 (218)
T ss_dssp             EEEETTSCTTCC-HHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             EEEECCCChHHH-HHHHHHHHHHHhcccccccCCCCEEEEEEchHh
Confidence            777765   232 3444556666654    3456778888887654

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=97.16  E-value=0.00091  Score=60.66  Aligned_cols=76  Identities=16%  Similarity=0.147  Sum_probs=44.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQ  128 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~  128 (331)
                      ++++|++|+||||+++.+++.+     +.  ..++...........+.+.....        .+..+|||.... .....
T Consensus       261 Iil~G~pGSGKSTla~~L~~~~-----~~--~~i~~D~~~~~~~~~~~~~~~l~--------~g~~vIiD~~~~-~~~~r  324 (416)
T 3zvl_A          261 VVAVGFPGAGKSTFIQEHLVSA-----GY--VHVNRDTLGSWQRCVSSCQAALR--------QGKRVVIDNTNP-DVPSR  324 (416)
T ss_dssp             EEEESCTTSSHHHHHHHHTGGG-----TC--EECCGGGSCSHHHHHHHHHHHHH--------TTCCEEEESCCC-SHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----Cc--EEEccchHHHHHHHHHHHHHHHh--------cCCcEEEeCCCC-CHHHH
Confidence            7999999999999999999876     33  33333333222222222222221        134567876543 45555


Q ss_pred             HHHHHHHHHhcC
Q 020071          129 QALRRTMEIYSN  140 (331)
Q Consensus       129 ~~Ll~~le~~~~  140 (331)
                      ..+...+.....
T Consensus       325 ~~~~~~~~~~~~  336 (416)
T 3zvl_A          325 ARYIQCAKDAGV  336 (416)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHcCC
Confidence            666666665443

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=97.15  E-value=0.0021  Score=55.36  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=20.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         5 I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            5 ILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7999999999999999999864

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.15  E-value=0.0022  Score=52.77  Aligned_cols=23  Identities=43%  Similarity=0.593  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|+||+|+|||++++.++..+.
T Consensus        26 ~~i~G~~GsGKTtl~~~l~~~~~   48 (235)
T 2w0m_A           26 IALTGEPGTGKTIFSLHFIAKGL   48 (235)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            69999999999999999997653

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.15  E-value=0.0019  Score=52.93  Aligned_cols=22  Identities=32%  Similarity=0.617  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||||+||+|.++.+++.+
T Consensus        32 I~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6889999999999999999988

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=97.15  E-value=0.002  Score=56.93  Aligned_cols=23  Identities=30%  Similarity=0.417  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++++||+|+|||+++..++....
T Consensus        64 v~I~G~pGsGKTtLal~la~~~~   86 (349)
T 2zr9_A           64 IEIYGPESSGKTTVALHAVANAQ   86 (349)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            69999999999999999987664

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.14  E-value=0.0051  Score=55.75  Aligned_cols=27  Identities=37%  Similarity=0.621  Sum_probs=23.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      +++.|++|+||||++..++..+...+.
T Consensus       103 IlivG~~G~GKTTt~~kLA~~l~~~G~  129 (443)
T 3dm5_A          103 LLMVGIQGSGKTTTVAKLARYFQKRGY  129 (443)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTTC
T ss_pred             EEEECcCCCCHHHHHHHHHHHHHHCCC
Confidence            699999999999999999998865543

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.13  E-value=0.0026  Score=54.89  Aligned_cols=85  Identities=16%  Similarity=0.255  Sum_probs=49.3

Q ss_pred             HHHHHHH----cCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC---------------------C
Q 020071           36 RLGIIAR----DGNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR---------------------G   89 (331)
Q Consensus        36 ~l~~~l~----~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---------------------~   89 (331)
                      .|...+.    .|-.+. ++++||||+|||+++..++......+.+..++.++.....                     .
T Consensus        13 ~LD~~LGg~~~GGl~~GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~   92 (333)
T 3io5_A           13 MMNIALSGEITGGMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQS   92 (333)
T ss_dssp             HHHHHHHSSTTCCBCSEEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSB
T ss_pred             HHHHHhCCCCCCCCcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCC
Confidence            4556666    444444 6999999999999999888776432112334445443221                     1


Q ss_pred             hHhH-HHHHHHHHhcccCCCCCCceEEEEeCCCCCC
Q 020071           90 IDVV-RNKIKMFAQKKVTLPPGKHKVVVLDEADSMT  124 (331)
Q Consensus        90 ~~~i-~~~i~~~~~~~~~~~~~~~~vviide~d~l~  124 (331)
                      .+++ .+.++....    .......+||||-+..+.
T Consensus        93 ~E~~~l~i~~~l~~----i~~~~~~lvVIDSI~aL~  124 (333)
T 3io5_A           93 LEQLRIDMVNQLDA----IERGEKVVVFIDSLGNLA  124 (333)
T ss_dssp             HHHHHHHHHHHHHT----CCTTCCEEEEEECSTTCB
T ss_pred             HHHHHHHHHHHHHH----hhccCceEEEEecccccc
Confidence            1222 222222111    124568999999988773

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.13  E-value=0.00036  Score=55.57  Aligned_cols=30  Identities=30%  Similarity=0.377  Sum_probs=25.7

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      +.++|.|++|+||||+++.+++.+     +..++.
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l-----~~~~i~   35 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLT-----KRILYD   35 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH-----CCCEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh-----CCCEEE
Confidence            358999999999999999999998     555554

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.11  E-value=0.00043  Score=54.67  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+|++|+||||+++.+++.+
T Consensus         6 i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            6 IILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            7999999999999999999998

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=97.11  E-value=0.0035  Score=56.81  Aligned_cols=26  Identities=35%  Similarity=0.378  Sum_probs=22.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      +++.|++|+||||++..++..+...+
T Consensus       100 I~lvG~~GsGKTTt~~kLA~~l~~~G  125 (433)
T 3kl4_A          100 IMLVGVQGSGKTTTAGKLAYFYKKRG  125 (433)
T ss_dssp             EEECCCTTSCHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            69999999999999999998886543

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.10  E-value=0.0026  Score=56.42  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|+|+||+|||+++..++....
T Consensus        77 i~I~G~pGsGKTtlal~la~~~~   99 (366)
T 1xp8_A           77 TEIYGPESGGKTTLALAIVAQAQ   99 (366)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCChHHHHHHHHHHHH
Confidence            69999999999999999988764

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.10  E-value=0.0013  Score=52.52  Aligned_cols=93  Identities=12%  Similarity=0.099  Sum_probs=49.7

Q ss_pred             EEEeCCCCccHH-HHHHHHHHHhcCCCCCCceEEeecCC-CCChHhHHHHHHHHHhc-ccCC------CCCCceEEEEeC
Q 020071           49 LILAGPPGTGKT-TSILALAHELLGPNYREAVMELNASD-DRGIDVVRNKIKMFAQK-KVTL------PPGKHKVVVLDE  119 (331)
Q Consensus        49 ~ll~G~~G~GKt-~la~~l~~~l~~~~~~~~~~~~~~~~-~~~~~~i~~~i~~~~~~-~~~~------~~~~~~vviide  119 (331)
                      .++|||.|+||| .+.+++.+....   +..++.+.+.- .+..+.+...+...... +...      ...+..+|+|||
T Consensus        23 ~fiyG~MgsGKTt~Ll~~i~n~~~~---~~kvl~~kp~~D~R~~~~i~S~~g~~~~A~~~~~~~d~~~~~~~~DvIlIDE   99 (195)
T 1w4r_A           23 QVILGPMFSGKSTELMRRVRRFQIA---QYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDE   99 (195)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHT---TCCEEEEEETTCCCGGGSCCHHHHHHSEEEEESSGGGGHHHHHTCSEEEESS
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHc---CCeEEEEccccCccchhhhhhccCCcccceecCCHHHHHHhccCCCEEEEEc
Confidence            599999999999 777877776543   23444444331 11111111111100000 0000      011246999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhcCCcEEEEee
Q 020071          120 ADSMTAGAQQALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus       120 ~d~l~~~~~~~Ll~~le~~~~~~~~I~~~  148 (331)
                      ++.+ ++ +..+++.+.+  .+.++|++.
T Consensus       100 aQFf-k~-~ve~~~~L~~--~gk~VI~~G  124 (195)
T 1w4r_A          100 GQFF-PD-IVEFCEAMAN--AGKTVIVAA  124 (195)
T ss_dssp             GGGC-TT-HHHHHHHHHH--TTCEEEEEE
T ss_pred             hhhh-HH-HHHHHHHHHH--CCCeEEEEe
Confidence            9999 55 5555566654  345666664

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.09  E-value=0.0019  Score=57.04  Aligned_cols=37  Identities=27%  Similarity=0.328  Sum_probs=27.4

Q ss_pred             HHHHHHHHcCCCC-e--EEEeCCCCccHHHHHHHHHHHhc
Q 020071           35 ARLGIIARDGNMP-N--LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        35 ~~l~~~l~~~~~~-~--~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ..|...+..|.++ .  ++|+||+|+|||+++..++..+.
T Consensus        47 ~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~   86 (356)
T 3hr8_A           47 LAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQ   86 (356)
T ss_dssp             HHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3455566523333 2  69999999999999999998764

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=97.04  E-value=0.0036  Score=55.17  Aligned_cols=41  Identities=22%  Similarity=0.276  Sum_probs=26.1

Q ss_pred             CCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+..++|+||+|.+... ....+..++...+....+++.|..
T Consensus       146 ~~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT  187 (367)
T 1hv8_A          146 KNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSAT  187 (367)
T ss_dssp             TSCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEECSS
T ss_pred             ccCCEEEEeCchHhhhhchHHHHHHHHHhCCCCceEEEEeec
Confidence            45689999999986432 234555666655556666665543

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=97.03  E-value=0.0038  Score=51.14  Aligned_cols=41  Identities=24%  Similarity=0.391  Sum_probs=25.9

Q ss_pred             CCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+..++|+||+|.+... ....+..++...+....+++.|..
T Consensus       154 ~~~~~iViDEah~~~~~~~~~~l~~i~~~~~~~~~~i~lSAT  195 (224)
T 1qde_A          154 DKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSAT  195 (224)
T ss_dssp             TTCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESS
T ss_pred             hhCcEEEEcChhHHhhhhhHHHHHHHHHhCCccCeEEEEEee
Confidence            45689999999987442 234455666655556666555443

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=97.03  E-value=0.0032  Score=55.51  Aligned_cols=22  Identities=27%  Similarity=0.072  Sum_probs=20.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+||+|+|||+++..++...
T Consensus       125 ~~I~G~~GsGKTtla~~la~~~  146 (343)
T 1v5w_A          125 TEAFGEFRTGKTQLSHTLCVTA  146 (343)
T ss_dssp             EEEECCTTCTHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6999999999999999999874

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=96.99  E-value=0.0027  Score=56.57  Aligned_cols=22  Identities=36%  Similarity=0.439  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+||+|+||||+++.++..+
T Consensus       172 i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          172 WLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            7999999999999999999876

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.98  E-value=0.00072  Score=52.94  Aligned_cols=23  Identities=39%  Similarity=0.446  Sum_probs=21.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47999999999999999999998

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.97  E-value=0.003  Score=55.81  Aligned_cols=68  Identities=21%  Similarity=0.271  Sum_probs=41.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC---------------------ChHhHHHHHHHHHhcccCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR---------------------GIDVVRNKIKMFAQKKVTL  107 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---------------------~~~~i~~~i~~~~~~~~~~  107 (331)
                      ++++|++|+|||+++..++......+  ..++.++.....                     ..+++.+.+.....     
T Consensus        66 i~I~G~pGsGKTtLal~la~~~~~~g--~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~-----  138 (356)
T 1u94_A           66 VEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR-----  138 (356)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH-----
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHh-----
Confidence            69999999999999999988764332  234444432211                     12233333332222     


Q ss_pred             CCCCceEEEEeCCCCCC
Q 020071          108 PPGKHKVVVLDEADSMT  124 (331)
Q Consensus       108 ~~~~~~vviide~d~l~  124 (331)
                       ..+..+||||.+..+.
T Consensus       139 -~~~~~lVVIDsl~~l~  154 (356)
T 1u94_A          139 -SGAVDVIVVDSVAALT  154 (356)
T ss_dssp             -HTCCSEEEEECGGGCC
T ss_pred             -ccCCCEEEEcCHHHhc
Confidence             1346799999988775

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=96.97  E-value=0.0058  Score=49.24  Aligned_cols=42  Identities=19%  Similarity=0.264  Sum_probs=26.2

Q ss_pred             CCCceEEEEeCCCCCCH-HHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTA-GAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~-~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..+..++|+||+|.+.. .....+..++...+.+..+++.|..
T Consensus       144 ~~~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~SAT  186 (206)
T 1vec_A          144 VDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSAT  186 (206)
T ss_dssp             CTTCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEESC
T ss_pred             cccCCEEEEEChHHhHhhCcHHHHHHHHHhCCccceEEEEEee
Confidence            34568999999997643 2344555566655555666555543

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.94  E-value=0.0007  Score=59.41  Aligned_cols=37  Identities=30%  Similarity=0.390  Sum_probs=30.1

Q ss_pred             HHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           34 VARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        34 ~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +..+...+..|..++++|.|++|+|||++++.+++.+
T Consensus        12 l~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A           12 LQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             HHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            3344444557777779999999999999999999988

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.92  E-value=0.00079  Score=54.39  Aligned_cols=29  Identities=34%  Similarity=0.457  Sum_probs=25.1

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .++|.|++|+||||+++.+++.+     +..++.
T Consensus        27 ~i~l~G~~GsGKsTl~~~La~~l-----~~~~i~   55 (199)
T 3vaa_A           27 RIFLTGYMGAGKTTLGKAFARKL-----NVPFID   55 (199)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH-----TCCEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc-----CCCEEc
Confidence            58999999999999999999998     555554

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.91  E-value=0.00069  Score=53.66  Aligned_cols=24  Identities=50%  Similarity=0.749  Sum_probs=22.2

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.++|+|++|+||||+++.+++.+
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHh
Confidence            348999999999999999999988

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.91  E-value=0.00064  Score=53.63  Aligned_cols=24  Identities=42%  Similarity=0.606  Sum_probs=22.2

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.++|.|++|+||||+++.+++.+
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            358999999999999999999998

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.91  E-value=0.0048  Score=51.20  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++++||+|+|||+++..++....
T Consensus        26 ~~i~G~~GsGKTtl~~~~~~~~~   48 (247)
T 2dr3_A           26 VLLSGGPGTGKTIFSQQFLWNGL   48 (247)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            69999999999999988877653

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.90  E-value=0.00076  Score=52.76  Aligned_cols=32  Identities=31%  Similarity=0.485  Sum_probs=26.2

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           46 MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      +.+++|.|++|+||||+++.+++.+     +.+++..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~l-----g~~~id~   38 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLAL-----KLEVLDT   38 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHH-----TCCEEEH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHh-----CCCEEEC
Confidence            3458999999999999999999998     5566543

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=96.89  E-value=0.0095  Score=53.00  Aligned_cols=42  Identities=31%  Similarity=0.364  Sum_probs=26.8

Q ss_pred             CCCceEEEEeCCCCCCH--HHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTA--GAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~--~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..+..+||+||+|.+..  .....+..++...+.+..+|+.+..
T Consensus       143 ~~~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT  186 (395)
T 3pey_A          143 LQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSAT  186 (395)
T ss_dssp             CTTCCEEEEETHHHHHHSTTHHHHHHHHHHTSCTTCEEEEEESC
T ss_pred             cccCCEEEEEChhhhcCccccHHHHHHHHHhCCCCcEEEEEEec
Confidence            34578999999998754  2334455555555556666666544

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=96.84  E-value=0.0024  Score=66.94  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++|||||||||++|++++.+-.
T Consensus      1085 ~l~~G~~g~GKT~la~~~~~~~~ 1107 (1706)
T 3cmw_A         1085 VEIYGPESSGKTTLTLQVIAAAQ 1107 (1706)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCChHHHHHHHHHHhh
Confidence            79999999999999999998653

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.83  E-value=0.00083  Score=53.37  Aligned_cols=29  Identities=34%  Similarity=0.546  Sum_probs=24.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .++|.|++|+||||+++.+++.+     +.+++.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~l-----g~~~id   32 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKAL-----GVGLLD   32 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHH-----TCCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc-----CCCEEe
Confidence            48999999999999999999988     555554

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=96.79  E-value=0.021  Score=52.80  Aligned_cols=70  Identities=19%  Similarity=0.161  Sum_probs=45.6

Q ss_pred             ceEEEEeCCCCCCHH----HHHHHHHHHHHhc-CCcEEEEeeCCCC--CCChhhhccc-ceeeecCCCHHHHHHHHHH
Q 020071          112 HKVVVLDEADSMTAG----AQQALRRTMEIYS-NSTRFALACNVSS--KIIEPIQSRC-AIVRFSRLSDEEILSRLMV  181 (331)
Q Consensus       112 ~~vviide~d~l~~~----~~~~Ll~~le~~~-~~~~~I~~~~~~~--~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~  181 (331)
                      +-+++|||+..+...    ..+.+.++..... ..+.+|+++..+.  .+...+++.+ ..+.|.--+..+...++..
T Consensus       298 ~ivlvIDE~~~ll~~~~~~~~~~l~~Lar~gRa~GI~LIlaTQrp~~dvl~~~i~~n~~~RI~lrv~s~~dsr~ilg~  375 (512)
T 2ius_A          298 YIVVLVDEFADLMMTVGKKVEELIARLAQKARAAGIHLVLATQRPSVDVITGLIKANIPTRIAFTVSSKIDSRTILDQ  375 (512)
T ss_dssp             EEEEEEETHHHHHHHHHHHHHHHHHHHHHHCGGGTEEEEEEESCCCTTTSCHHHHHHCCEEEEECCSSHHHHHHHHSS
T ss_pred             cEEEEEeCHHHHHhhhhHHHHHHHHHHHHHhhhCCcEEEEEecCCccccccHHHHhhcCCeEEEEcCCHHHHHHhcCC
Confidence            359999999665432    2333334444333 3677888887776  4667777765 4578888888888777643

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=96.78  E-value=0.0057  Score=52.15  Aligned_cols=39  Identities=15%  Similarity=-0.010  Sum_probs=28.6

Q ss_pred             cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           29 GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      -.+...+.+..++..+   +.++.+|+|+|||..+..++...
T Consensus       114 l~~~Q~~ai~~~l~~~---~~ll~~~tGsGKT~~~~~~~~~~  152 (282)
T 1rif_A          114 PHWYQKDAVFEGLVNR---RRILNLPTSAGRSLIQALLARYY  152 (282)
T ss_dssp             CCHHHHHHHHHHHHHS---EEEECCCTTSCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHhcC---CeEEEcCCCCCcHHHHHHHHHHH
Confidence            4555666666666653   46889999999999987777654

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.77  E-value=0.018  Score=50.77  Aligned_cols=92  Identities=13%  Similarity=0.203  Sum_probs=50.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec------CC----------CCChHhHHHHHHHHHhcccCCCCCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNA------SD----------DRGIDVVRNKIKMFAQKKVTLPPGK  111 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~------~~----------~~~~~~i~~~i~~~~~~~~~~~~~~  111 (331)
                      .+++.||+|+||||+.+.++..+.... +..++.+..      ..          ......+.+.+..+.       ..+
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~~~~~~-~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL-------~~~  196 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDYLNNTK-YHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSAL-------RED  196 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHHC-CCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHT-------TSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhcccCCC-CcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHh-------hhC
Confidence            489999999999999999988775320 011111100      00          000112333333222       345


Q ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          112 HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      +.++++||+-  ..+....+++..+.   +..+++++...+
T Consensus       197 PdvillDEp~--d~e~~~~~~~~~~~---G~~vl~t~H~~~  232 (356)
T 3jvv_A          197 PDIILVGEMR--DLETIRLALTAAET---GHLVFGTLHTTS  232 (356)
T ss_dssp             CSEEEESCCC--SHHHHHHHHHHHHT---TCEEEEEESCSS
T ss_pred             cCEEecCCCC--CHHHHHHHHHHHhc---CCEEEEEEccCh
Confidence            7899999996  45566666666543   233555554433

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=96.77  E-value=0.0098  Score=51.26  Aligned_cols=41  Identities=37%  Similarity=0.405  Sum_probs=26.5

Q ss_pred             CCceEEEEeCCCCCCH--HHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTA--GAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~--~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..-+++||||+|.+..  .....+..++...+.++.+|+.+..
T Consensus       234 ~~l~~lVlDEad~l~~~~~~~~~~~~i~~~~~~~~q~i~~SAT  276 (300)
T 3fmo_B          234 KKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSAT  276 (300)
T ss_dssp             GGCSEEEETTHHHHHHSTTHHHHHHHHHTTSCTTCEEEEEESC
T ss_pred             hhceEEEEeCHHHHhhccCcHHHHHHHHHhCCCCCEEEEEecc
Confidence            3568999999998754  3344455556555566666665543

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.75  E-value=0.001  Score=52.97  Aligned_cols=25  Identities=32%  Similarity=0.448  Sum_probs=22.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .++|.|++|+||||+++.+++.+..
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~~l~~   29 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMDNLRK   29 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3799999999999999999998843

>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA dependent ATPase, mRNA export, nucleocytoplasmic transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens} PDB: 3ews_A* 3g0h_A* 3fhc_B

Probab=96.74  E-value=0.011  Score=53.10  Aligned_cols=41  Identities=37%  Similarity=0.405  Sum_probs=25.3

Q ss_pred             CCceEEEEeCCCCCCH--HHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTA--GAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~--~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+..+|||||+|.+..  .....+..++...+.+..+|+.+..
T Consensus       167 ~~~~~iViDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT  209 (412)
T 3fht_A          167 KKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSAT  209 (412)
T ss_dssp             GGCCEEEEETHHHHHSTTTTHHHHHHHHHTSCTTCEEEEEESC
T ss_pred             hhCcEEEEeCHHHHhhcCCcHHHHHHHHhhCCCCceEEEEEee
Confidence            4568999999997632  2333444555555556666665543

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.73  E-value=0.0011  Score=52.75  Aligned_cols=23  Identities=43%  Similarity=0.720  Sum_probs=21.4

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHH
Q 020071           47 PNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ..++|+|++|+||||+++.+++.
T Consensus        11 ~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            34899999999999999999998

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.71  E-value=0.0013  Score=51.60  Aligned_cols=23  Identities=48%  Similarity=0.712  Sum_probs=21.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.|++|+||||+++.++..+
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999987

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.70  E-value=0.0014  Score=55.24  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.||+|+||||+|+.+++.+
T Consensus         3 li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHhcC
Confidence            36999999999999999999988

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=96.69  E-value=0.011  Score=49.04  Aligned_cols=41  Identities=24%  Similarity=0.273  Sum_probs=25.7

Q ss_pred             CCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ...+++|+||+|.+... ....+..++...+....+|+.|..
T Consensus       172 ~~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~i~~SAT  213 (237)
T 3bor_A          172 KWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLSAT  213 (237)
T ss_dssp             TTCCEEEEESHHHHHHTTCHHHHHHHHHHSCTTCEEEEECSS
T ss_pred             ccCcEEEECCchHhhccCcHHHHHHHHHhCCCCCeEEEEEEe
Confidence            45689999999976432 234455566655556666665543

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=96.69  E-value=0.0022  Score=52.08  Aligned_cols=91  Identities=12%  Similarity=0.113  Sum_probs=48.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC--CChHhHHHHH------------HHHHhcccCCCCCCceE
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD--RGIDVVRNKI------------KMFAQKKVTLPPGKHKV  114 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~--~~~~~i~~~i------------~~~~~~~~~~~~~~~~v  114 (331)
                      .+++||-|+|||+.+...+..+...+  ..+..+.+...  .+...+...+            ......    -..+..+
T Consensus        31 ~vitG~M~sGKTT~Llr~~~r~~~~g--~kvli~kp~~D~R~~~~~I~Sr~G~~~~a~~v~~~~di~~~----i~~~~dv  104 (219)
T 3e2i_A           31 ECITGSMFSGKSEELIRRLRRGIYAK--QKVVVFKPAIDDRYHKEKVVSHNGNAIEAINISKASEIMTH----DLTNVDV  104 (219)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTT--CCEEEEEEC-----------CBTTBCCEEEEESSGGGGGGS----CCTTCSE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcC--CceEEEEeccCCcchhhhHHHhcCCceeeEEeCCHHHHHHH----HhcCCCE
Confidence            49999999999995544445443332  23333332211  0100000000            000000    0245679


Q ss_pred             EEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEee
Q 020071          115 VVLDEADSMTAGAQQALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus       115 viide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~  148 (331)
                      |+|||+++++++..+.+..+.+   .+.++|+..
T Consensus       105 V~IDEaQFf~~~~v~~l~~la~---~gi~Vi~~G  135 (219)
T 3e2i_A          105 IGIDEVQFFDDEIVSIVEKLSA---DGHRVIVAG  135 (219)
T ss_dssp             EEECCGGGSCTHHHHHHHHHHH---TTCEEEEEE
T ss_pred             EEEechhcCCHHHHHHHHHHHH---CCCEEEEee
Confidence            9999999999887777777663   356666653

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.67  E-value=0.0031  Score=54.10  Aligned_cols=22  Identities=41%  Similarity=0.670  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||+|+||||+++.+++.+
T Consensus        36 ivl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           36 FLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6999999999999999999987

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.66  E-value=0.0056  Score=52.93  Aligned_cols=25  Identities=40%  Similarity=0.530  Sum_probs=22.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +++.|++|+||||++..++..+...
T Consensus       107 i~ivG~~GsGKTTl~~~LA~~l~~~  131 (306)
T 1vma_A          107 IMVVGVNGTGKTTSCGKLAKMFVDE  131 (306)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCChHHHHHHHHHHHHHhc
Confidence            6999999999999999999887543

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.65  E-value=0.0013  Score=51.64  Aligned_cols=23  Identities=35%  Similarity=0.456  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999988

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.63  E-value=0.0016  Score=52.62  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=21.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus        20 ~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           20 SIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999988

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*

Probab=96.62  E-value=0.0053  Score=50.62  Aligned_cols=40  Identities=20%  Similarity=0.305  Sum_probs=23.8

Q ss_pred             CCceEEEEeCCCCCCHH--HHHHHHHHHHHhcCCcEEEEeeC
Q 020071          110 GKHKVVVLDEADSMTAG--AQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       110 ~~~~vviide~d~l~~~--~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      .+.+++||||+|.+...  -...+..++...+....+++.+.
T Consensus       165 ~~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~l~lSA  206 (230)
T 2oxc_A          165 GSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSA  206 (230)
T ss_dssp             GGCCEEEESSHHHHHSTTSSHHHHHHHHHHSCSSCEEEEEES
T ss_pred             ccCCEEEeCCchHhhcCcchHHHHHHHHHhCCCCCeEEEEEe
Confidence            34579999999987322  23445555555555565555443

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=96.62  E-value=0.013  Score=47.17  Aligned_cols=42  Identities=24%  Similarity=0.239  Sum_probs=26.0

Q ss_pred             CCCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..+.+++|+||+|.+... ....+..++...+.+..+++.|..
T Consensus       142 ~~~~~~iViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT  184 (207)
T 2gxq_A          142 LSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSAT  184 (207)
T ss_dssp             CTTCSEEEEESHHHHHHTTCHHHHHHHHHTSCTTSEEEEECSS
T ss_pred             hhhceEEEEEChhHhhccchHHHHHHHHHhCCccCeEEEEEEe
Confidence            345789999999977432 234455555555556666655543

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=96.61  E-value=0.012  Score=48.23  Aligned_cols=42  Identities=17%  Similarity=0.193  Sum_probs=27.1

Q ss_pred             CCCceEEEEeCCCCCCHHH-HHHHHHHHHHhcCCcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTAGA-QQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~~-~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..+.+++||||+|.+.... ...+..++...+.+..+++.+..
T Consensus       165 ~~~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~SAT  207 (228)
T 3iuy_A          165 LRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSAT  207 (228)
T ss_dssp             CTTCCEEEECCHHHHHHTTCHHHHHHHHHHSCSSCEEEEEESC
T ss_pred             cccceEEEEECHHHHhccchHHHHHHHHHhCCcCCeEEEEEee
Confidence            3457899999999875432 34555666666666666665543

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.61  E-value=0.002  Score=52.76  Aligned_cols=23  Identities=39%  Similarity=0.768  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus         6 ~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            6 RMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999988

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.60  E-value=0.0015  Score=52.71  Aligned_cols=22  Identities=50%  Similarity=0.915  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus        23 I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           23 VLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999988

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.58  E-value=0.0015  Score=52.10  Aligned_cols=22  Identities=55%  Similarity=0.702  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         8 I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            8 IIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7999999999999999999988

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.57  E-value=0.0014  Score=52.33  Aligned_cols=25  Identities=32%  Similarity=0.413  Sum_probs=22.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .++|.|++|+||||+++.+++.+..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3799999999999999999999853

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.57  E-value=0.011  Score=52.02  Aligned_cols=22  Identities=32%  Similarity=0.277  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|+||+|+|||++++.++...
T Consensus       134 ~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          134 TEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6999999999999999999876

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.56  E-value=0.0014  Score=55.07  Aligned_cols=22  Identities=36%  Similarity=0.543  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus        35 i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           35 ILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             EEEESCGGGTTHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            7999999999999999999987

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.56  E-value=0.0017  Score=50.63  Aligned_cols=22  Identities=32%  Similarity=0.306  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            3 IYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEESCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999988

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.55  E-value=0.0037  Score=53.85  Aligned_cols=22  Identities=36%  Similarity=0.656  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.||+|+|||+++..+++.+
T Consensus         6 i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            6 VAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEECCCcCCHHHHHHHHHHhC
Confidence            6999999999999999999987

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.54  E-value=0.0017  Score=51.98  Aligned_cols=23  Identities=26%  Similarity=0.523  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus        11 ~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A           11 IIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999988

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.52  E-value=0.0017  Score=51.87  Aligned_cols=22  Identities=27%  Similarity=0.549  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         6 I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            6 VFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999987

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.52  E-value=0.013  Score=49.47  Aligned_cols=23  Identities=30%  Similarity=0.712  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|.||+|+||||+.+.++..+.
T Consensus        28 v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           28 ILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             EEEECSTTCSHHHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHhCC
Confidence            79999999999999999998764

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=96.51  E-value=0.012  Score=47.98  Aligned_cols=41  Identities=15%  Similarity=0.143  Sum_probs=25.4

Q ss_pred             CCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ...+++||||+|.+... ....+..++...+.+..+++.|..
T Consensus       149 ~~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~SAT  190 (219)
T 1q0u_A          149 HTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSAT  190 (219)
T ss_dssp             GGCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEESC
T ss_pred             CcceEEEEcCchHHhhhChHHHHHHHHHhCCcccEEEEEecC
Confidence            34679999999987532 234455666655556655555433

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.51  E-value=0.002  Score=51.17  Aligned_cols=22  Identities=55%  Similarity=0.889  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         7 I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            7 VIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999987

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=96.48  E-value=0.015  Score=53.49  Aligned_cols=42  Identities=36%  Similarity=0.374  Sum_probs=26.8

Q ss_pred             CCceEEEEeCCCCCCH--HHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEADSMTA--GAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~d~l~~--~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      ...++|||||+|.+..  .....+..++...+.++.+|+.+..+
T Consensus       234 ~~~~~iViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~  277 (479)
T 3fmp_B          234 KKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATF  277 (479)
T ss_dssp             GGCCEEEECCHHHHHTSTTHHHHHHHHHTTSCTTSEEEEEESCC
T ss_pred             ccCCEEEEECHHHHhhcCCcHHHHHHHHhhCCccceEEEEeCCC
Confidence            4568999999997632  33444555555555667776665443

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.46  E-value=0.0064  Score=64.66  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=22.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      ++++||+|+|||+++..++.+....+
T Consensus      1084 vll~G~~GtGKT~la~~~~~ea~k~G 1109 (2050)
T 3cmu_A         1084 VEIYGPESSGKTTLTLQVIAAAQREG 1109 (2050)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            89999999999999999998765443

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.45  E-value=0.0022  Score=51.12  Aligned_cols=22  Identities=27%  Similarity=0.623  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         9 I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            9 VFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999999988

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.45  E-value=0.014  Score=50.72  Aligned_cols=47  Identities=21%  Similarity=0.278  Sum_probs=31.7

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .|...+ .|-.+.  +++.|+||+|||+++..++.....++  .+++.++..
T Consensus        57 ~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE  105 (315)
T 3bh0_A           57 ELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE  105 (315)
T ss_dssp             HHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS
T ss_pred             HHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC
Confidence            344444 443333  69999999999999999998765443  345555543

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=96.43  E-value=0.022  Score=50.66  Aligned_cols=42  Identities=14%  Similarity=0.247  Sum_probs=27.6

Q ss_pred             CCCceEEEEeCCCCCCH--HHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTA--GAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~--~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .....+||+||+|.+..  .....+..++...+....+++.|..
T Consensus       150 ~~~~~~vViDEaH~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT  193 (391)
T 1xti_A          150 LKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSAT  193 (391)
T ss_dssp             CTTCSEEEECSHHHHTSSHHHHHHHHHHHHTSCSSSEEEEEESS
T ss_pred             ccccCEEEEeCHHHHhhccchHHHHHHHHhhCCCCceEEEEEee
Confidence            34578999999998854  4445566666665556666655443

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.39  E-value=0.0018  Score=51.90  Aligned_cols=23  Identities=30%  Similarity=0.530  Sum_probs=21.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus        14 ~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           14 IIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999999988

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.39  E-value=0.0024  Score=51.48  Aligned_cols=23  Identities=30%  Similarity=0.530  Sum_probs=21.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus        17 ~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           17 VIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            37999999999999999999987

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.39  E-value=0.0035  Score=51.91  Aligned_cols=23  Identities=43%  Similarity=0.751  Sum_probs=21.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus        18 ~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           18 RAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999998

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=96.39  E-value=0.017  Score=56.46  Aligned_cols=28  Identities=25%  Similarity=0.471  Sum_probs=20.0

Q ss_pred             HHHHcCCCCeEEEeCCCCccHHHHHHHHHH
Q 020071           39 IIARDGNMPNLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        39 ~~l~~~~~~~~ll~G~~G~GKt~la~~l~~   68 (331)
                      ..+.++.  .+++.||+|+|||+++..+..
T Consensus       104 ~~l~~~~--~vii~gpTGSGKTtllp~ll~  131 (773)
T 2xau_A          104 KLYQNNQ--IMVFVGETGSGKTTQIPQFVL  131 (773)
T ss_dssp             HHHHHCS--EEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHhCCC--eEEEECCCCCCHHHHHHHHHH
Confidence            3344443  489999999999996666543

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.38  E-value=0.002  Score=52.81  Aligned_cols=23  Identities=48%  Similarity=0.716  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus         7 ~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            7 NLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47999999999999999999998

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.38  E-value=0.0035  Score=50.53  Aligned_cols=23  Identities=35%  Similarity=0.554  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.||+|+||||+++.++..+
T Consensus        31 ~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           31 HVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            47999999999999999999987

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.37  E-value=0.041  Score=50.82  Aligned_cols=25  Identities=32%  Similarity=0.409  Sum_probs=22.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ++|.|++|+||||++..++..+...
T Consensus       104 I~ivG~~GvGKTTl~~kLA~~l~~~  128 (504)
T 2j37_W          104 IMFVGLQGSGKTTTCSKLAYYYQRK  128 (504)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhC
Confidence            7999999999999999999877543

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=96.36  E-value=0.03  Score=46.43  Aligned_cols=40  Identities=23%  Similarity=0.262  Sum_probs=24.6

Q ss_pred             CCCceEEEEeCCCCCCH----HHHHHHHHHHHHh-cCCcEEEEee
Q 020071          109 PGKHKVVVLDEADSMTA----GAQQALRRTMEIY-SNSTRFALAC  148 (331)
Q Consensus       109 ~~~~~vviide~d~l~~----~~~~~Ll~~le~~-~~~~~~I~~~  148 (331)
                      ..+.+++||||+|.+..    .....+..++... +.+.++++.+
T Consensus       173 ~~~~~~lViDEah~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~S  217 (245)
T 3dkp_A          173 LASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFS  217 (245)
T ss_dssp             CTTCCEEEESSHHHHHHHC--CHHHHHHHHHHHCCCTTCEEEEEE
T ss_pred             cccCcEEEEeChHHhcccccccHHHHHHHHHHhcCCCCcEEEEEe
Confidence            34578999999998864    2445556665542 2345555444

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.35  E-value=0.0071  Score=50.05  Aligned_cols=38  Identities=24%  Similarity=0.114  Sum_probs=26.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC----CCCceEEeecCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN----YREAVMELNASD   86 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~   86 (331)
                      +.|+||+|+|||++++.++.......    .....+.++...
T Consensus        27 ~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           27 TEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            69999999999999999998642211    123455555544

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.34  E-value=0.017  Score=49.05  Aligned_cols=45  Identities=13%  Similarity=0.149  Sum_probs=32.6

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCcEEEEeeCCCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYS--NSTRFALACNVSSKI  154 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~--~~~~~I~~~~~~~~l  154 (331)
                      .+++++++||. ..|.......+.+++.+..  .+..+|+++.+...+
T Consensus       160 ~~P~lLlLDEPts~LD~~~~~~i~~~l~~l~~~~g~tvi~vtHdl~~~  207 (275)
T 3gfo_A          160 MEPKVLILDEPTAGLDPMGVSEIMKLLVEMQKELGITIIIATHDIDIV  207 (275)
T ss_dssp             TCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHHHCCEEEEEESCCSSG
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHHhhCCCEEEEEecCHHHH
Confidence            46899999996 5678888888888877643  255677777765543

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.34  E-value=0.0019  Score=53.21  Aligned_cols=23  Identities=26%  Similarity=0.553  Sum_probs=21.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus         9 ~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            9 RAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            47999999999999999999987

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=96.33  E-value=0.0072  Score=54.67  Aligned_cols=90  Identities=19%  Similarity=0.224  Sum_probs=50.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHH----------------HHhcccCCCCCCc
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKM----------------FAQKKVTLPPGKH  112 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~----------------~~~~~~~~~~~~~  112 (331)
                      .++.|++|+|||+++..++..       .....+.+... ..+.+++.+..                +..........+.
T Consensus       164 ~~I~G~aGsGKTt~I~~~~~~-------~~~lVlTpT~~-aa~~l~~kl~~~~~~~~~~~~V~T~dsfL~~~~~~~~~~~  235 (446)
T 3vkw_A          164 VLVDGVPGCGKTKEILSRVNF-------EEDLILVPGRQ-AAEMIRRRANASGIIVATKDNVRTVDSFLMNYGKGARCQF  235 (446)
T ss_dssp             EEEEECTTSCHHHHHHHHCCT-------TTCEEEESCHH-HHHHHHHHHTTTSCCCCCTTTEEEHHHHHHTTTSSCCCCC
T ss_pred             EEEEcCCCCCHHHHHHHHhcc-------CCeEEEeCCHH-HHHHHHHHhhhcCccccccceEEEeHHhhcCCCCCCCCcC
Confidence            499999999999999877642       11222332221 22333333321                1111100001136


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          113 KVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       113 ~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .++||||+..++......++..+   +. ..+|+....
T Consensus       236 d~liiDE~sm~~~~~l~~l~~~~---~~-~~vilvGD~  269 (446)
T 3vkw_A          236 KRLFIDEGLMLHTGCVNFLVEMS---LC-DIAYVYGDT  269 (446)
T ss_dssp             SEEEEETGGGSCHHHHHHHHHHT---TC-SEEEEEECT
T ss_pred             CEEEEeCcccCCHHHHHHHHHhC---CC-CEEEEecCc
Confidence            89999999999887777666553   23 677777643

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=96.31  E-value=0.015  Score=48.64  Aligned_cols=41  Identities=17%  Similarity=0.223  Sum_probs=24.8

Q ss_pred             CCCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeC
Q 020071          109 PGKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      ....+++|+||+|.+... -...+.+++...+....+++.+.
T Consensus       184 l~~~~~lViDEah~l~~~~~~~~l~~i~~~~~~~~~~l~~SA  225 (249)
T 3ber_A          184 LRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSA  225 (249)
T ss_dssp             CTTCCEEEECSHHHHHHTTCHHHHHHHHHSSCSSSEEEEEES
T ss_pred             ccccCEEEEcChhhhhccChHHHHHHHHHhCCCCCeEEEEec
Confidence            345679999999976432 23445556655555555555443

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.30  E-value=0.038  Score=48.24  Aligned_cols=37  Identities=30%  Similarity=0.377  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +...+.-.+..|.  .+++.||+|+||||+++.++..+.
T Consensus       160 ~l~~l~~~i~~g~--~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          160 AISAIKDGIAIGK--NVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             HHHHHHHHHHHTC--CEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             HHhhhhhhccCCC--EEEEECCCCCCHHHHHHHHhCCCc
Confidence            4556666676766  489999999999999999998764

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.28  E-value=0.0041  Score=50.11  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=21.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||+|+||||+++.++..+.
T Consensus        28 i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           28 IWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999999884

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=96.28  E-value=0.05  Score=48.51  Aligned_cols=40  Identities=15%  Similarity=0.271  Sum_probs=24.0

Q ss_pred             CCCceEEEEeCCCCCCHHH-HHHHHHHHHHhcCCcEEEEee
Q 020071          109 PGKHKVVVLDEADSMTAGA-QQALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~~-~~~Ll~~le~~~~~~~~I~~~  148 (331)
                      ..+..++|+||+|.+.... ...+..++...+....+++.+
T Consensus       161 ~~~~~~vIiDEaH~~~~~~~~~~~~~i~~~~~~~~~~i~lS  201 (400)
T 1s2m_A          161 LSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS  201 (400)
T ss_dssp             CTTCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEE
T ss_pred             cccCCEEEEeCchHhhhhchHHHHHHHHHhCCcCceEEEEE
Confidence            3456899999999775443 334444554444455555444

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.28  E-value=0.0036  Score=49.18  Aligned_cols=22  Identities=36%  Similarity=0.661  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.++..+
T Consensus        11 i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A           11 YVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHhh
Confidence            7999999999999999999887

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=96.27  E-value=0.012  Score=49.59  Aligned_cols=41  Identities=17%  Similarity=0.268  Sum_probs=26.2

Q ss_pred             CCCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeC
Q 020071          109 PGKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      ..+.+++||||+|.+... -...+..++...+....+++.+.
T Consensus       199 ~~~l~~lViDEah~l~~~~~~~~l~~i~~~~~~~~q~l~~SA  240 (262)
T 3ly5_A          199 YKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSA  240 (262)
T ss_dssp             CTTCCEEEECSHHHHHHTTCHHHHHHHHHHSCSSSEEEEECS
T ss_pred             cccCCEEEEcChHHHhhhhHHHHHHHHHHhCCCCCeEEEEEe
Confidence            355789999999986543 23445556666566666655543

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.26  E-value=0.0022  Score=52.68  Aligned_cols=23  Identities=22%  Similarity=0.510  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus         7 ~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            7 KVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999998

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.26  E-value=0.0024  Score=50.93  Aligned_cols=22  Identities=50%  Similarity=0.703  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.++...
T Consensus        12 i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A           12 LLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHTCS
T ss_pred             EEEECCCCCCHHHHHHHHHhcc
Confidence            7999999999999999998863

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.22  E-value=0.003  Score=50.01  Aligned_cols=22  Identities=27%  Similarity=0.410  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.+...+
T Consensus         8 i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            8 LVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            7999999999999999999876

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=96.22  E-value=0.019  Score=51.48  Aligned_cols=41  Identities=24%  Similarity=0.297  Sum_probs=27.0

Q ss_pred             CCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ...++|||||+|.+... ....+..++...+.+..+|+.+..
T Consensus       182 ~~~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT  223 (414)
T 3eiq_A          182 KYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSAT  223 (414)
T ss_dssp             TTCCEEEECSHHHHHHTTTHHHHHHHHTTSCTTCEEEEECSC
T ss_pred             ccCcEEEEECHHHhhccCcHHHHHHHHHhCCCCCeEEEEEEe
Confidence            44689999999986433 234556666666666777666544

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=96.21  E-value=0.013  Score=46.41  Aligned_cols=22  Identities=27%  Similarity=0.449  Sum_probs=19.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||++++.+....
T Consensus        17 i~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           17 IVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEECSTTSSHHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            8999999999999998777654

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=96.19  E-value=0.024  Score=46.68  Aligned_cols=41  Identities=20%  Similarity=0.231  Sum_probs=25.9

Q ss_pred             CCCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeC
Q 020071          109 PGKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      .....++||||+|.+... ....+..++...+....+++.|.
T Consensus       169 ~~~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~SA  210 (236)
T 2pl3_A          169 ATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSA  210 (236)
T ss_dssp             CTTCCEEEETTHHHHHHTTTHHHHHHHHHTSCTTSEEEEEES
T ss_pred             cccccEEEEeChHHHhcCCcHHHHHHHHHhCCCCCeEEEEEe
Confidence            345679999999977432 23455666666565665555443

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.19  E-value=0.003  Score=51.14  Aligned_cols=24  Identities=21%  Similarity=0.285  Sum_probs=22.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++|.|++|+||||+++.+++.+..
T Consensus         7 I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            7 IAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhh
Confidence            799999999999999999999854

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.18  E-value=0.0037  Score=54.29  Aligned_cols=31  Identities=32%  Similarity=0.562  Sum_probs=25.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      .++++||+|+|||+++..+++.+     +..++..+
T Consensus         7 ~i~i~GptGsGKTtla~~La~~l-----~~~iis~D   37 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALADAL-----PCELISVD   37 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS-----CEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc-----CCcEEecc
Confidence            37999999999999999999988     44455544

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=96.18  E-value=0.031  Score=49.65  Aligned_cols=42  Identities=24%  Similarity=0.370  Sum_probs=26.7

Q ss_pred             CCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      .+..++|+||+|.+... ....+..++...+....+++.+..+
T Consensus       161 ~~~~~vIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~  203 (394)
T 1fuu_A          161 DKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATM  203 (394)
T ss_dssp             TTCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEECSSC
T ss_pred             hhCcEEEEEChHHhhCCCcHHHHHHHHHhCCCCceEEEEEEec
Confidence            45689999999987432 2344555566555666666665443

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.16  E-value=0.0037  Score=50.98  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999988

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.16  E-value=0.003  Score=51.11  Aligned_cols=22  Identities=41%  Similarity=0.715  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||+|+||||+++.+++.+
T Consensus        15 i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           15 LVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7999999999999999999987

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.15  E-value=0.0043  Score=50.99  Aligned_cols=22  Identities=27%  Similarity=0.504  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+||||+++.+++.+
T Consensus         3 I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            3 ILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999999988

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.15  E-value=0.004  Score=50.05  Aligned_cols=23  Identities=26%  Similarity=0.495  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.|++|+||||+++.+++.+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            37899999999999999999988

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=96.15  E-value=0.02  Score=46.71  Aligned_cols=23  Identities=26%  Similarity=0.431  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|.+|+|||+++..+...-.
T Consensus        16 ivlvGd~~VGKTsLi~r~~~~~f   38 (216)
T 4dkx_A           16 LVFLGEQSVGKTSLITRFMYDSF   38 (216)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEECcCCcCHHHHHHHHHhCCC
Confidence            79999999999999999987543

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.15  E-value=0.0028  Score=50.40  Aligned_cols=24  Identities=46%  Similarity=0.559  Sum_probs=22.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++|.|++|+||||+++.++..+..
T Consensus        16 i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           16 VWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHh
Confidence            799999999999999999998853

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=96.14  E-value=0.022  Score=51.96  Aligned_cols=37  Identities=19%  Similarity=0.191  Sum_probs=26.5

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.....+...+..    ++++.+|+|+|||..+..++...
T Consensus        11 ~~~Q~~~i~~~~~~----~~ll~~~tG~GKT~~~~~~~~~~   47 (494)
T 1wp9_A           11 RIYQEVIYAKCKET----NCLIVLPTGLGKTLIAMMIAEYR   47 (494)
T ss_dssp             CHHHHHHHHHGGGS----CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHhhC----CEEEEcCCCCCHHHHHHHHHHHH
Confidence            34455555544443    68999999999999888886655

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=96.12  E-value=0.034  Score=49.86  Aligned_cols=41  Identities=24%  Similarity=0.297  Sum_probs=26.1

Q ss_pred             CCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ....++||||+|.+... ....+..++...+....+++.+..
T Consensus       178 ~~~~~vViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT  219 (410)
T 2j0s_A          178 RAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISAT  219 (410)
T ss_dssp             TTCCEEEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEESC
T ss_pred             hheeEEEEccHHHHHhhhhHHHHHHHHHhCccCceEEEEEcC
Confidence            45689999999976432 245556666655556666655433

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=96.12  E-value=0.015  Score=61.12  Aligned_cols=68  Identities=21%  Similarity=0.281  Sum_probs=42.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC---------------------CChHhHHHHHHHHHhcccCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD---------------------RGIDVVRNKIKMFAQKKVTL  107 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~---------------------~~~~~i~~~i~~~~~~~~~~  107 (331)
                      ++|+||||+|||+++..++......+  ..+..++....                     ...+.+.+.+.....     
T Consensus       735 VlI~G~PG~GKTtLal~lA~~aa~~g--~~VlyiS~Ees~~ql~A~~lGvd~~~L~i~~~~~leei~~~l~~lv~-----  807 (1706)
T 3cmw_A          735 VEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR-----  807 (1706)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH-----
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHcC--CCeEEEeccchHHHHHHHHcCCChhheEEecCCcHHHHHHHHHHHHH-----
Confidence            79999999999999999988764322  23444433221                     122333333332222     


Q ss_pred             CCCCceEEEEeCCCCCC
Q 020071          108 PPGKHKVVVLDEADSMT  124 (331)
Q Consensus       108 ~~~~~~vviide~d~l~  124 (331)
                       ..+..+||||.++.+.
T Consensus       808 -~~~~~lVVIDsLq~l~  823 (1706)
T 3cmw_A          808 -SGAVDVIVVDSVAALT  823 (1706)
T ss_dssp             -HTCCSEEEESCSTTCC
T ss_pred             -ccCCCEEEEechhhhc
Confidence             1346799999999886

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=96.10  E-value=0.031  Score=43.37  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        10 i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A           10 VILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998654

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.07  E-value=0.0056  Score=51.28  Aligned_cols=43  Identities=23%  Similarity=0.319  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHc---CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           32 DAVARLGIIARD---GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        32 ~~~~~l~~~l~~---~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .+++.+.-.+..   |.  .+.|.|++|+||||+++.+++.+     +..++.
T Consensus        33 ~~l~~~~~~i~~~l~g~--~i~l~G~~GsGKSTl~~~La~~l-----g~~~~d   78 (250)
T 3nwj_A           33 QILKKKAEEVKPYLNGR--SMYLVGMMGSGKTTVGKIMARSL-----GYTFFD   78 (250)
T ss_dssp             HHHHHHHHTTHHHHTTC--CEEEECSTTSCHHHHHHHHHHHH-----TCEEEE
T ss_pred             hhhhhhhhhhhhhcCCC--EEEEECCCCCCHHHHHHHHHHhc-----CCcEEe
Confidence            344444333444   43  48999999999999999999988     555554

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.06  E-value=0.015  Score=51.08  Aligned_cols=42  Identities=17%  Similarity=0.282  Sum_probs=30.8

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYS--NSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~--~~~~~I~~~~~~  151 (331)
                      .+++++++||. ..|.......+.+.+.+..  .+..+|++|.+.
T Consensus       144 ~~P~lLLLDEP~s~LD~~~~~~l~~~l~~l~~~~g~tii~vTHd~  188 (348)
T 3d31_A          144 TNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHITHDQ  188 (348)
T ss_dssp             SCCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEEEESCH
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            46899999995 6778888888888777543  245677777654

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.05  E-value=0.0051  Score=50.46  Aligned_cols=23  Identities=39%  Similarity=0.612  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.||+|+||||+++.+++.+
T Consensus         7 ~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            7 VITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47999999999999999999987

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=96.02  E-value=0.032  Score=51.22  Aligned_cols=39  Identities=26%  Similarity=0.145  Sum_probs=29.1

Q ss_pred             cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           29 GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      -.+...+.+..++..+   ++++.||.|+|||..+..++...
T Consensus        94 l~~~Q~~ai~~i~~~~---~~ll~~~TGsGKT~~~l~~i~~~  132 (472)
T 2fwr_A           94 LRDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINEL  132 (472)
T ss_dssp             BCHHHHHHHHHHTTTT---EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHhcC---CEEEEeCCCCCHHHHHHHHHHHc
Confidence            3555666666555443   48999999999999988887776

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.02  E-value=0.011  Score=48.43  Aligned_cols=43  Identities=21%  Similarity=0.200  Sum_probs=33.7

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +++....++..+.....+.+++.|.+|+|||+++..++.....
T Consensus        22 ~~~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~   64 (226)
T 2hf9_A           22 NKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKD   64 (226)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            3445566777776666666899999999999999999988643

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=96.02  E-value=0.093  Score=53.72  Aligned_cols=40  Identities=18%  Similarity=0.123  Sum_probs=28.4

Q ss_pred             cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHH
Q 020071           29 GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~   68 (331)
                      .|..++..+.+.+.++...+++++||.|+|||..+...+-
T Consensus       607 ~Q~~ai~~il~~~~~g~p~d~ll~~~TGsGKT~val~aa~  646 (1151)
T 2eyq_A          607 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAF  646 (1151)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCcCcEEEECCCCCCHHHHHHHHHH
Confidence            3555555566555667655699999999999987764443

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.01  E-value=0.028  Score=48.47  Aligned_cols=41  Identities=12%  Similarity=0.265  Sum_probs=29.9

Q ss_pred             CceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          111 KHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       111 ~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      +++++++||+ ..+.......+.+.+.+...+..+|+++.+.
T Consensus       208 ~p~iLlLDEPts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l  249 (306)
T 3nh6_A          208 APGIILLDEATSALDTSNERAIQASLAKVCANRTTIVVAHRL  249 (306)
T ss_dssp             CCSEEEEECCSSCCCHHHHHHHHHHHHHHHTTSEEEEECCSH
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEEcCh
Confidence            5789999996 4667777778888877655555667777653

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.01  E-value=0.009  Score=57.36  Aligned_cols=41  Identities=24%  Similarity=0.416  Sum_probs=30.8

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++...+.+...+....  -.|++||||||||+++-.+...+..
T Consensus       191 N~~Q~~AV~~al~~~~--~~lI~GPPGTGKT~ti~~~I~~l~~  231 (646)
T 4b3f_X          191 DTSQKEAVLFALSQKE--LAIIHGPPGTGKTTTVVEIILQAVK  231 (646)
T ss_dssp             CHHHHHHHHHHHHCSS--EEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcCCC--ceEEECCCCCCHHHHHHHHHHHHHh
Confidence            6777777887776543  3699999999999877776666543

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.01  E-value=0.004  Score=49.59  Aligned_cols=22  Identities=41%  Similarity=0.758  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+||+|+||||+++.+.+..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999998876

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=95.99  E-value=0.0058  Score=49.30  Aligned_cols=42  Identities=12%  Similarity=0.199  Sum_probs=21.6

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++...+.+.+.......-.+++.|++|+|||+++..+.....
T Consensus        14 ~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~   55 (204)
T 4gzl_A           14 LVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNAF   55 (204)
T ss_dssp             ----------------CEEEEEEESTTSSHHHHHHHHHHSCC
T ss_pred             cccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCCC
Confidence            333444444444444433489999999999999999987543

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=95.98  E-value=0.022  Score=43.89  Aligned_cols=22  Identities=23%  Similarity=0.477  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||++++.+...-
T Consensus         9 i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            9 VCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            7999999999999999998764

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.98  E-value=0.0045  Score=50.53  Aligned_cols=45  Identities=18%  Similarity=0.165  Sum_probs=36.1

Q ss_pred             cccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           27 IVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +-++.+....+.........+.++|.|++|+|||+++..++..+.
T Consensus        11 l~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           11 LAENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             HhhcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            345566677777777766777789999999999999999998863

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=95.97  E-value=0.037  Score=50.29  Aligned_cols=20  Identities=35%  Similarity=0.474  Sum_probs=16.4

Q ss_pred             eEEEeCCCCccHHHHH-HHHH
Q 020071           48 NLILAGPPGTGKTTSI-LALA   67 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la-~~l~   67 (331)
                      ++++.||+|+|||..+ ..+.
T Consensus         4 ~~lv~a~TGsGKT~~~l~~~l   24 (431)
T 2v6i_A            4 LTVLDLHPGAGKTRRVLPQLV   24 (431)
T ss_dssp             EEEEECCTTSCTTTTHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            5899999999999875 4444

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=95.97  E-value=0.031  Score=48.47  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=18.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++++.+|+|+|||..+...+...
T Consensus        33 ~~lv~~~TGsGKT~~~~~~~~~~   55 (337)
T 2z0m_A           33 NVVVRAKTGSGKTAAYAIPILEL   55 (337)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEcCCCCcHHHHHHHHHHhh
Confidence            59999999999998766655443

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=95.96  E-value=0.0088  Score=54.29  Aligned_cols=23  Identities=39%  Similarity=0.595  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|+|++|+||||++..++..+.
T Consensus       102 I~ivG~~GvGKTTla~~La~~l~  124 (432)
T 2v3c_C          102 ILLVGIQGSGKTTTAAKLARYIQ  124 (432)
T ss_dssp             EEEECCSSSSTTHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999998874

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.94  E-value=0.01  Score=47.74  Aligned_cols=40  Identities=25%  Similarity=0.106  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHcCC--CCe-EEEeCCCCccHHHHHHHHHHHhc
Q 020071           32 DAVARLGIIARDGN--MPN-LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        32 ~~~~~l~~~l~~~~--~~~-~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.+..+...+....  .+. +.+.|++|+||||+++.++..+.
T Consensus         5 ~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            5 DRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             HHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34555555555432  222 69999999999999999998774

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.93  E-value=0.007  Score=52.04  Aligned_cols=22  Identities=36%  Similarity=0.629  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.||+|+|||+++..+++.+
T Consensus        13 i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           13 IFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEECCCccCHHHHHHHHHHhC
Confidence            6999999999999999999987

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=95.92  E-value=0.0066  Score=47.47  Aligned_cols=36  Identities=19%  Similarity=0.222  Sum_probs=26.9

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           46 MPNLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      ++-+.|.|++|+||||++..++..+...+....++.
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            445799999999999999999998754433333333

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.92  E-value=0.0049  Score=49.12  Aligned_cols=33  Identities=27%  Similarity=0.208  Sum_probs=25.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      +.|.|++|+||||+++.+++.+...  +..++..+
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~~~--g~~~i~~d   35 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLKQK--GYFVSLYR   35 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHT--TCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEe
Confidence            6899999999999999999987322  33445443

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=95.91  E-value=0.012  Score=51.97  Aligned_cols=42  Identities=14%  Similarity=0.238  Sum_probs=30.2

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSN--STRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~--~~~~I~~~~~~  151 (331)
                      .+++++++||. ..|.......+.+.+.+...  +..+|++|.+.
T Consensus       150 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~  194 (359)
T 2yyz_A          150 KQPKVLLFDEPLSNLDANLRMIMRAEIKHLQQELGITSVYVTHDQ  194 (359)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEEESCH
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEcCCH
Confidence            46899999995 56778888888777765432  45677777664

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=95.91  E-value=0.0041  Score=50.54  Aligned_cols=23  Identities=35%  Similarity=0.541  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||+|+||||+++.++..+.
T Consensus        11 i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A           11 IVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHHSTT
T ss_pred             EEEECcCCCCHHHHHHHHHhhCC
Confidence            79999999999999999998763

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.91  E-value=0.026  Score=44.81  Aligned_cols=23  Identities=26%  Similarity=0.528  Sum_probs=20.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            38999999999999999998864

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.89  E-value=0.0073  Score=48.95  Aligned_cols=23  Identities=43%  Similarity=0.629  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||+|+||||+++.++..+.
T Consensus        25 v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           25 VALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            69999999999999999999884

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.88  E-value=0.094  Score=47.93  Aligned_cols=23  Identities=35%  Similarity=0.573  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|+||+|||+++..++..+.
T Consensus       206 iiI~G~pG~GKTtl~l~ia~~~~  228 (454)
T 2r6a_A          206 IIVAARPSVGKTAFALNIAQNVA  228 (454)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            69999999999999999998764

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=95.86  E-value=0.088  Score=40.06  Aligned_cols=22  Identities=18%  Similarity=0.425  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998754

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=95.85  E-value=0.078  Score=42.34  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        32 i~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           32 LVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhhCC
Confidence            8999999999999999997654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.84  E-value=0.0044  Score=50.23  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=22.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++|.|++|+||||+++.+++.+..
T Consensus        13 I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A           13 IVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            799999999999999999998743

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=95.84  E-value=0.035  Score=48.98  Aligned_cols=42  Identities=12%  Similarity=0.180  Sum_probs=31.5

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYS--NSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~--~~~~~I~~~~~~  151 (331)
                      .+++++++||. ..|.+.....+++++.+..  .+..+|+++.+.
T Consensus       180 ~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl  224 (366)
T 3tui_C          180 SNPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEM  224 (366)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCH
T ss_pred             cCCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCH
Confidence            46899999996 5678888888888887653  256677777654

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.84  E-value=0.21  Score=39.25  Aligned_cols=24  Identities=38%  Similarity=0.740  Sum_probs=21.1

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ..+++.|++|+|||+++..+...-
T Consensus        49 ~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           49 PSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            348999999999999999998754

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=95.83  E-value=0.014  Score=51.79  Aligned_cols=42  Identities=14%  Similarity=0.214  Sum_probs=30.3

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSN--STRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~--~~~~I~~~~~~  151 (331)
                      .+++++++||. ..|.......+...+.+...  +..+|++|.+.
T Consensus       158 ~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g~tvi~vTHd~  202 (372)
T 1v43_A          158 VEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQ  202 (372)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCH
T ss_pred             cCCCEEEEcCCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCH
Confidence            46899999995 56778888888777765432  45677777664

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=95.83  E-value=0.041  Score=42.69  Aligned_cols=23  Identities=22%  Similarity=0.413  Sum_probs=20.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus        17 ~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           17 KYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            38999999999999999998754

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.83  E-value=0.0073  Score=50.60  Aligned_cols=23  Identities=17%  Similarity=0.287  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.|++|+||||+++.+++.+
T Consensus        24 iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           24 LIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999999987

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=95.83  E-value=0.038  Score=51.19  Aligned_cols=38  Identities=16%  Similarity=0.004  Sum_probs=27.7

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.....+...+..   .+++++||.|+|||..+..++...
T Consensus       115 ~~~Q~~ai~~~~~~---~~~ll~~~tGsGKT~~~~~~~~~~  152 (510)
T 2oca_A          115 HWYQKDAVFEGLVN---RRRILNLPTSAGRSLIQALLARYY  152 (510)
T ss_dssp             CHHHHHHHHHHHHH---SEEEEECCSTTTHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhc---CCcEEEeCCCCCHHHHHHHHHHHH
Confidence            45555556555554   358999999999999887776654

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=95.81  E-value=0.04  Score=45.57  Aligned_cols=42  Identities=19%  Similarity=0.226  Sum_probs=26.8

Q ss_pred             CCCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..+-+++||||+|.+... -...+..++...+.+..+++.+..
T Consensus       174 ~~~~~~lViDEah~l~~~~~~~~~~~i~~~~~~~~q~~~~SAT  216 (242)
T 3fe2_A          174 LRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSAT  216 (242)
T ss_dssp             CTTCCEEEETTHHHHHHTTCHHHHHHHHTTSCSSCEEEEEESC
T ss_pred             cccccEEEEeCHHHHhhhCcHHHHHHHHHhCCccceEEEEEee
Confidence            345789999999987542 234455566655566666665443

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.81  E-value=0.0078  Score=49.75  Aligned_cols=23  Identities=39%  Similarity=0.627  Sum_probs=21.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.||+|+||||+++.+++.+
T Consensus        11 ~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A           11 VVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47999999999999999999988

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.80  E-value=0.0049  Score=49.72  Aligned_cols=22  Identities=32%  Similarity=0.424  Sum_probs=20.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.|++|+||||+++.+++ +
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~   24 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-L   24 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-T
T ss_pred             EEEEECCCCcCHHHHHHHHHH-C
Confidence            478999999999999999999 6

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=95.79  E-value=0.032  Score=43.93  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        14 i~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           14 FLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998753

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.79  E-value=0.0057  Score=51.01  Aligned_cols=23  Identities=35%  Similarity=0.723  Sum_probs=21.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.||+|+||||+++.+++.+
T Consensus        29 ~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           29 RAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47999999999999999999887

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.79  E-value=0.0053  Score=53.52  Aligned_cols=24  Identities=38%  Similarity=0.541  Sum_probs=22.1

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .++|.||+|+|||+++..+++.+.
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHCC
Confidence            479999999999999999999883

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=95.78  E-value=0.018  Score=44.23  Aligned_cols=24  Identities=17%  Similarity=0.439  Sum_probs=20.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+++.|++|+|||+++..+.....
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~~~   30 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKGIF   30 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCCC
T ss_pred             EEEEECcCCCCHHHHHHHHHcCCC
Confidence            389999999999999999987543

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=95.78  E-value=0.053  Score=48.15  Aligned_cols=41  Identities=15%  Similarity=0.234  Sum_probs=29.8

Q ss_pred             CceEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CcEEEEeeCCC
Q 020071          111 KHKVVVLDEA-DSMTAGAQQALRRTMEIYSN--STRFALACNVS  151 (331)
Q Consensus       111 ~~~vviide~-d~l~~~~~~~Ll~~le~~~~--~~~~I~~~~~~  151 (331)
                      +++++++||. ..|.......+++.+.+...  +..+|++|.+.
T Consensus       151 ~P~lLLLDEPts~LD~~~~~~l~~~l~~l~~~~g~tii~vTHd~  194 (381)
T 3rlf_A          151 EPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLGRTMIYVTHDQ  194 (381)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHCCEEEEECSCH
T ss_pred             CCCEEEEECCCcCCCHHHHHHHHHHHHHHHHhCCCEEEEEECCH
Confidence            5889999995 56777777888777765432  46677777664

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=95.78  E-value=0.029  Score=44.42  Aligned_cols=24  Identities=25%  Similarity=0.522  Sum_probs=21.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+++.|++|+|||+++..+...-.
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~~   48 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDTF   48 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCcCHHHHHHHHhcCCC
Confidence            389999999999999999988653

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.78  E-value=0.024  Score=48.68  Aligned_cols=23  Identities=39%  Similarity=0.624  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.|++|+||||++..++..+.
T Consensus       108 i~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          108 IVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999998875

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.76  E-value=0.096  Score=47.72  Aligned_cols=48  Identities=23%  Similarity=0.170  Sum_probs=32.1

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .|...+ .|-.+.  +++.|+||+|||+++..++...... .+.+++.++..
T Consensus       189 ~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~-~g~~vl~~slE  238 (444)
T 2q6t_A          189 ELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAALK-EGVGVGIYSLE  238 (444)
T ss_dssp             HHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESS
T ss_pred             hhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEECC
Confidence            455555 443333  6999999999999999999876432 12345555543

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.75  E-value=0.0051  Score=49.95  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=22.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .++|.|++|+||||+++.+++.+..
T Consensus        11 ~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A           11 LIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3799999999999999999998743

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=95.74  E-value=0.042  Score=47.15  Aligned_cols=25  Identities=40%  Similarity=0.484  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +.+.|+.|+||||++..++..+...
T Consensus       101 i~i~g~~G~GKTT~~~~la~~~~~~  125 (295)
T 1ls1_A          101 WFLVGLQGSGKTTTAAKLALYYKGK  125 (295)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHc
Confidence            6788999999999999999887543

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.74  E-value=0.009  Score=48.15  Aligned_cols=23  Identities=26%  Similarity=0.481  Sum_probs=21.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.|++|+||||+++.+++.+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            47999999999999999999988

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.74  E-value=0.0071  Score=48.45  Aligned_cols=28  Identities=29%  Similarity=0.375  Sum_probs=23.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      +.|+|++|+||||+++.+++.+     +.+++.
T Consensus        15 IgltG~~GSGKSTva~~L~~~l-----g~~vid   42 (192)
T 2grj_A           15 IGVTGKIGTGKSTVCEILKNKY-----GAHVVN   42 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH-----CCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----CCEEEE
Confidence            6899999999999999999987     555554

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.73  E-value=0.0053  Score=49.39  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus         6 ~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            6 LIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTS
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            37999999999999999999987

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.69  E-value=0.015  Score=49.73  Aligned_cols=23  Identities=26%  Similarity=0.716  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.+.|++|+||||+++.++..+.
T Consensus        34 i~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           34 IFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            69999999999999999999874

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.69  E-value=0.068  Score=40.57  Aligned_cols=24  Identities=21%  Similarity=0.441  Sum_probs=21.1

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.+++.|++|+|||+++..+...-
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999998753

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=95.68  E-value=0.075  Score=53.58  Aligned_cols=53  Identities=15%  Similarity=0.149  Sum_probs=31.6

Q ss_pred             CchhhhcCCCCCCc--cccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHH
Q 020071           13 IPWVEKYRPTKVCD--IVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        13 ~~~~~~~~p~~~~~--~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~   68 (331)
                      .||.+...|.....  +--.+...+.+.... ++.  ++++.+|+|+|||..+.....
T Consensus        69 ~~~~~~~~p~~~~~~~f~L~~~Q~eai~~l~-~g~--~vLV~apTGSGKTlva~lai~  123 (1010)
T 2xgj_A           69 TPIAEHKRVNEARTYPFTLDPFQDTAISCID-RGE--SVLVSAHTSAGKTVVAEYAIA  123 (1010)
T ss_dssp             CCGGGCCCSSCSCCCSSCCCHHHHHHHHHHH-HTC--EEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCcccChhhHHhCCCCCCHHHHHHHHHHH-cCC--CEEEECCCCCChHHHHHHHHH
Confidence            46766665543111  222444444555443 343  599999999999998754443

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=95.67  E-value=0.041  Score=42.03  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         7 i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            7 VIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            8999999999999999998754

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=95.67  E-value=0.0063  Score=55.43  Aligned_cols=36  Identities=33%  Similarity=0.444  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+..|....+.+   .++|+|++|+|||++++.++....
T Consensus       141 ~ID~L~pi~kGq---~~~i~G~sGvGKTtL~~~l~~~~~  176 (473)
T 1sky_E          141 VVDLLAPYIKGG---KIGLFGGAGVGKTVLIQELIHNIA  176 (473)
T ss_dssp             HHHHHSCEETTC---EEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhccCC---EEEEECCCCCCccHHHHHHHhhhh
Confidence            445554444333   389999999999999999987653

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.67  E-value=0.013  Score=47.46  Aligned_cols=24  Identities=33%  Similarity=0.598  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .++|.|++|+||||+++.+++.+.
T Consensus        27 ~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           27 TIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            379999999999999999999874

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.67  E-value=0.0065  Score=48.34  Aligned_cols=22  Identities=45%  Similarity=0.777  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.++...
T Consensus         5 i~l~G~~GaGKSTl~~~L~~~~   26 (189)
T 2bdt_A            5 YIITGPAGVGKSTTCKRLAAQL   26 (189)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCcHHHHHHHHhccc
Confidence            6899999999999999998754

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.65  E-value=0.0057  Score=49.32  Aligned_cols=22  Identities=32%  Similarity=0.585  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.++..+
T Consensus         9 i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            9 IVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EEEECSTTSCHHHHHHHHHHCT
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            7999999999999999999876

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.64  E-value=0.0079  Score=47.37  Aligned_cols=23  Identities=43%  Similarity=0.598  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.|++|+||||+++.++..+.
T Consensus         8 i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            8 VWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            69999999999999999999873

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=95.64  E-value=0.035  Score=43.77  Aligned_cols=22  Identities=27%  Similarity=0.548  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+....
T Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           24 LVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            8999999999999999998764

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.63  E-value=0.12  Score=46.92  Aligned_cols=25  Identities=40%  Similarity=0.507  Sum_probs=22.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +++.|+.|+||||++..++..+...
T Consensus       103 I~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A          103 VLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHh
Confidence            6889999999999999999888654

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=95.62  E-value=0.02  Score=49.82  Aligned_cols=38  Identities=18%  Similarity=0.216  Sum_probs=27.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC----CCCCceEEeecCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP----NYREAVMELNASD   86 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~   86 (331)
                      ++|+||+|+|||+++..++......    +.+..++.++...
T Consensus       110 ~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~  151 (324)
T 2z43_A          110 TEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEG  151 (324)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             EEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCC
Confidence            6999999999999999999875322    0123455665554

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.62  E-value=0.012  Score=46.40  Aligned_cols=38  Identities=32%  Similarity=0.399  Sum_probs=27.3

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           46 MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      .+.+.|.|++|+||||++..+...+...+.....+...
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~~g~~v~~i~~~   43 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHT   43 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccccCCceeEEeeC
Confidence            34579999999999999999998875433333344433

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.61  E-value=0.0072  Score=48.65  Aligned_cols=22  Identities=41%  Similarity=0.747  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.++..+
T Consensus        10 i~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A           10 FIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHHhhC
Confidence            6999999999999999999875

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=95.61  E-value=0.022  Score=46.60  Aligned_cols=23  Identities=30%  Similarity=0.242  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||+|+||||+++.++..+.
T Consensus        28 ~~l~G~nGsGKSTll~~l~g~~~   50 (231)
T 4a74_A           28 TEVFGEFGSGKTQLAHTLAVMVQ   50 (231)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            69999999999999999998653

>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A

Probab=95.58  E-value=0.027  Score=51.57  Aligned_cols=23  Identities=26%  Similarity=0.437  Sum_probs=17.5

Q ss_pred             eEEEeCCCCccHHHH-HHHHHHHh
Q 020071           48 NLILAGPPGTGKTTS-ILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~l-a~~l~~~l   70 (331)
                      ++++.||+|+|||.. ...+...+
T Consensus        23 ~vlv~a~TGsGKT~~~~l~il~~~   46 (459)
T 2z83_A           23 MTVLDLHPGSGKTRKILPQIIKDA   46 (459)
T ss_dssp             EEEECCCTTSCTTTTHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999986 45554443

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.56  E-value=0.0078  Score=48.36  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.+.+..
T Consensus        22 ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           22 LVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECcCCCCHHHHHHHHHhhC
Confidence            7999999999999999999876

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=95.56  E-value=0.022  Score=44.66  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+....
T Consensus         8 i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            8 CVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7999999999999999998654

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.55  E-value=0.0088  Score=48.27  Aligned_cols=20  Identities=35%  Similarity=0.391  Sum_probs=18.9

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      +.|.|++|+||||+++.++.
T Consensus         5 i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            5 VGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEECSTTSCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999999987

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=95.51  E-value=0.0093  Score=53.70  Aligned_cols=58  Identities=17%  Similarity=0.252  Sum_probs=37.3

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHHHHcCC------------------CCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGIIARDGN------------------MPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~------------------~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++..-|.+.....-.-...++..+.-.+..|.                  ...+.|.||+|+||||+.+.++...
T Consensus        18 ~~~~~~~~~~~~~~k~~~~~~l~~is~~i~~Ge~~~~~~~i~~~L~~~~~~~~~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           18 SSFTGYFKKFNTGRKIISQEILNLIELRMRAGNIQLTNSAISDALKEIDSSVLNVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             HHHHHHHTTSCGGGCSSCHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHCCEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             hhhHHhhhhhccccccCCHHHhhhccceecCCCCcccchhhhhhhhhcccCCeEEEEECCCCCcHHHHHHHHhCCC
Confidence            344445544322222224556666666676666                  1137999999999999999998754

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.49  E-value=0.01  Score=51.86  Aligned_cols=23  Identities=26%  Similarity=0.598  Sum_probs=21.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.||+|+|||+++..+++.+
T Consensus         9 lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             eEEEECCCcCcHHHHHHHHHHHc
Confidence            37999999999999999999988

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.47  E-value=0.0093  Score=47.98  Aligned_cols=22  Identities=41%  Similarity=0.733  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.+...+
T Consensus         7 i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            7 VVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            7999999999999999999876

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=95.47  E-value=0.091  Score=41.71  Aligned_cols=23  Identities=22%  Similarity=0.432  Sum_probs=19.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||++++.+...+
T Consensus        22 ki~~vG~~~vGKTsLi~~l~~~~   44 (196)
T 3llu_A           22 RILLMGLRRSGKSSIQKVVFHKM   44 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            48999999999999998776643

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=95.46  E-value=0.11  Score=41.85  Aligned_cols=25  Identities=20%  Similarity=0.262  Sum_probs=21.5

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           47 PNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ..+++.|++|+|||+++..+...-.
T Consensus         8 ~ki~vvG~~~~GKTsli~~l~~~~~   32 (214)
T 2fh5_B            8 RAVLFVGLCDSGKTLLFVRLLTGQY   32 (214)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            3489999999999999999987543

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=95.45  E-value=0.054  Score=41.48  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         9 i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7999999999999999998753

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.45  E-value=0.012  Score=49.34  Aligned_cols=23  Identities=43%  Similarity=0.618  Sum_probs=21.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+.|.||+|+||||+++.+++.+
T Consensus        29 ~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           29 VITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            37999999999999999999987

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=95.44  E-value=0.057  Score=43.05  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=20.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus        16 ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            38999999999999999998754

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.43  E-value=0.036  Score=49.99  Aligned_cols=51  Identities=18%  Similarity=0.271  Sum_probs=34.5

Q ss_pred             CCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           22 TKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ..++++--.......+...+. ..-..+++.||+|+||||+.+.+...+...
T Consensus       144 ~~l~~Lg~~~~~~~~L~~l~~-~~ggii~I~GpnGSGKTTlL~allg~l~~~  194 (418)
T 1p9r_A          144 LDLHSLGMTAHNHDNFRRLIK-RPHGIILVTGPTGSGKSTTLYAGLQELNSS  194 (418)
T ss_dssp             CCGGGSCCCHHHHHHHHHHHT-SSSEEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             CCHHHcCCCHHHHHHHHHHHH-hcCCeEEEECCCCCCHHHHHHHHHhhcCCC
Confidence            345555444444555666643 221237999999999999999999988543

>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A

Probab=95.42  E-value=0.045  Score=50.58  Aligned_cols=102  Identities=19%  Similarity=0.211  Sum_probs=61.2

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcc-cC--------------------
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKK-VT--------------------  106 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~-~~--------------------  106 (331)
                      +.++.-+.|+|||..+-.++..+...+...+++.+.+..  -..+|.+.+..+.... ..                    
T Consensus        58 ~~ilad~~GlGKT~~ai~~i~~~~~~~~~~~~LIv~P~~--l~~qw~~e~~~~~~~~~v~~~~g~~~~~~~~~~~ivi~t  135 (500)
T 1z63_A           58 GICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLS--VLKNWEEELSKFAPHLRFAVFHEDRSKIKLEDYDIILTT  135 (500)
T ss_dssp             CEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECST--THHHHHHHHHHHCTTSCEEECSSSTTSCCGGGSSEEEEE
T ss_pred             CEEEEeCCCCcHHHHHHHHHHHHHhcCCCCCEEEEccHH--HHHHHHHHHHHHCCCceEEEEecCchhccccCCcEEEee
Confidence            488999999999998888877765433334455554432  3466776666553210 00                    


Q ss_pred             ---------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          107 ---------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       107 ---------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                               +......+||+||+|.+.... ....+.+...+...++.++++...
T Consensus       136 ~~~l~~~~~l~~~~~~~vIvDEaH~~kn~~-~~~~~~l~~l~~~~~l~LTaTP~~  189 (500)
T 1z63_A          136 YAVLLRDTRLKEVEWKYIVIDEAQNIKNPQ-TKIFKAVKELKSKYRIALTGTPIE  189 (500)
T ss_dssp             HHHHTTCHHHHTCCEEEEEEETGGGGSCTT-SHHHHHHHTSCEEEEEEECSSCST
T ss_pred             HHHHhccchhcCCCcCEEEEeCccccCCHh-HHHHHHHHhhccCcEEEEecCCCC
Confidence                     001245799999999985321 223344444445566777776544

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.41  E-value=0.024  Score=50.12  Aligned_cols=38  Identities=37%  Similarity=0.532  Sum_probs=27.5

Q ss_pred             CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           45 NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        45 ~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      ..+.+.|.|++|+||||++..++..+...+....++..
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~  115 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAV  115 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEec
Confidence            33347999999999999999999887554433333333

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.41  E-value=0.054  Score=41.51  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7999999999999999998754

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=95.40  E-value=0.061  Score=41.81  Aligned_cols=22  Identities=32%  Similarity=0.640  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        15 i~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           15 LVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECcCCCCHHHHHHHHHcCC
Confidence            8999999999999999998753

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=95.38  E-value=0.025  Score=45.87  Aligned_cols=22  Identities=36%  Similarity=0.528  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        30 i~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           30 LVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998754

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.37  E-value=0.024  Score=50.81  Aligned_cols=39  Identities=21%  Similarity=0.095  Sum_probs=26.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC----CCCceEEeecCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN----YREAVMELNASDD   87 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~----~~~~~~~~~~~~~   87 (331)
                      +.|+||+|+|||+++..++-......    .....+.++....
T Consensus       181 ~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~  223 (400)
T 3lda_A          181 TELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGT  223 (400)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSC
T ss_pred             EEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCc
Confidence            69999999999999998875432211    1234666665543

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.34  E-value=0.13  Score=44.91  Aligned_cols=34  Identities=21%  Similarity=0.389  Sum_probs=25.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      +++.|+||+|||+++..++......  +.++..++.
T Consensus        49 iiIaG~pG~GKTt~al~ia~~~a~~--g~~Vl~fSl   82 (338)
T 4a1f_A           49 VIIGARPSMGKTSLMMNMVLSALND--DRGVAVFSL   82 (338)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHT--TCEEEEEES
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHc--CCeEEEEeC
Confidence            6999999999999999998876442  334444443

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.34  E-value=0.094  Score=41.23  Aligned_cols=24  Identities=21%  Similarity=0.321  Sum_probs=20.9

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.+++.|++|+|||+++..+...-
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCc
Confidence            458999999999999999997653

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.33  E-value=0.081  Score=41.54  Aligned_cols=26  Identities=23%  Similarity=0.368  Sum_probs=21.3

Q ss_pred             CCCCeEEEeCCCCccHHHHHHHHHHH
Q 020071           44 GNMPNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        44 ~~~~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .....+++.|++|+|||++...+...
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcC
Confidence            33334899999999999999999853

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=95.31  E-value=0.027  Score=48.91  Aligned_cols=22  Identities=32%  Similarity=0.330  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+|++|+|||+++..++...
T Consensus       101 ~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A          101 TEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6999999999999999999764

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=95.30  E-value=0.04  Score=41.96  Aligned_cols=23  Identities=26%  Similarity=0.553  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+|||+++..+.....
T Consensus         6 i~v~G~~~~GKssl~~~l~~~~~   28 (166)
T 2ce2_X            6 LVVVGAGGVGKSALTIQLIQNHF   28 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCcC
Confidence            89999999999999999987643

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=95.29  E-value=0.057  Score=42.14  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        21 i~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           21 VIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            8999999999999999998754

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.28  E-value=0.12  Score=46.95  Aligned_cols=47  Identities=21%  Similarity=0.260  Sum_probs=31.7

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .|.+.+ .|-.+.  +++.|+||+|||+++..++.....+  +.++..++..
T Consensus       186 ~LD~~l-gGl~~G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlE  234 (444)
T 3bgw_A          186 ELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLE  234 (444)
T ss_dssp             HHHHHH-SSBCSSCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSS
T ss_pred             HHHhhc-CCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECC
Confidence            344444 343333  6999999999999999999887544  3345555443

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.28  E-value=0.0051  Score=49.89  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.|++|+||||+++.+++.+.
T Consensus         3 I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            68999999999999999999884

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=95.28  E-value=0.065  Score=42.21  Aligned_cols=23  Identities=22%  Similarity=0.328  Sum_probs=20.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus        22 ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           22 KIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            38999999999999999998654

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=95.24  E-value=0.02  Score=45.08  Aligned_cols=22  Identities=23%  Similarity=0.465  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        10 i~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A           10 IVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7999999999999999998754

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.18  E-value=0.016  Score=47.24  Aligned_cols=21  Identities=43%  Similarity=0.577  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.|++|+||||+++.+++ +
T Consensus         7 I~i~G~~GSGKST~~~~L~~-l   27 (218)
T 1vht_A            7 VALTGGIGSGKSTVANAFAD-L   27 (218)
T ss_dssp             EEEECCTTSCHHHHHHHHHH-T
T ss_pred             EEEECCCCCCHHHHHHHHHH-c
Confidence            79999999999999999987 5

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=95.18  E-value=0.17  Score=46.87  Aligned_cols=35  Identities=11%  Similarity=-0.046  Sum_probs=26.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      +++.|+||+|||+++..++.....+. +.++..++.
T Consensus       245 ~li~G~pG~GKT~lal~~a~~~a~~~-g~~vl~~s~  279 (503)
T 1q57_A          245 IMVTSGSGMVMSTFVRQQALQWGTAM-GKKVGLAML  279 (503)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHTTTS-CCCEEEEES
T ss_pred             EEEeecCCCCchHHHHHHHHHHHHhc-CCcEEEEec
Confidence            69999999999999999998875431 234444443

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.18  E-value=0.018  Score=47.15  Aligned_cols=38  Identities=26%  Similarity=0.228  Sum_probs=23.8

Q ss_pred             HHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           35 ARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        35 ~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ..+..........-+.|.|++|+||||.++.+++.+..
T Consensus        10 ~~~~~~~~~~~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           10 GTLEAQTQGPGSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             ---------CCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             ccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            34444444433333799999999999999999998853

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=95.16  E-value=0.057  Score=42.68  Aligned_cols=23  Identities=35%  Similarity=0.638  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+|||+++..+...-.
T Consensus        19 i~v~G~~~~GKSsli~~l~~~~~   41 (196)
T 3tkl_A           19 LLLIGDSGVGKSCLLLRFADDTY   41 (196)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEECcCCCCHHHHHHHHHcCCC
Confidence            89999999999999999987543

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.16  E-value=0.02  Score=54.38  Aligned_cols=43  Identities=14%  Similarity=0.253  Sum_probs=31.5

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      .+++++++||+ ..+.......+.+.+.+...+..+|+++.+.+
T Consensus       508 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~  551 (598)
T 3qf4_B          508 ANPKILILDEATSNVDTKTEKSIQAAMWKLMEGKTSIIIAHRLN  551 (598)
T ss_dssp             TCCSEEEECCCCTTCCHHHHHHHHHHHHHHHTTSEEEEESCCTT
T ss_pred             cCCCEEEEECCccCCCHHHHHHHHHHHHHHcCCCEEEEEecCHH
Confidence            35789999996 45677777777777776555666777777654

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.15  E-value=0.011  Score=46.27  Aligned_cols=17  Identities=35%  Similarity=0.614  Sum_probs=16.0

Q ss_pred             EEEeCCCCccHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILA   65 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~   65 (331)
                      +.+.||+|+||||+++.
T Consensus        12 ~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           12 VVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEECCTTSCHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHH
Confidence            69999999999999994

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.15  E-value=0.043  Score=44.02  Aligned_cols=24  Identities=29%  Similarity=0.577  Sum_probs=21.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+++.|++|+|||+++..+.....
T Consensus        28 ki~lvG~~~vGKSsLi~~l~~~~~   51 (201)
T 2ew1_A           28 KIVLIGNAGVGKTCLVRRFTQGLF   51 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCC
Confidence            389999999999999999987643

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=95.12  E-value=0.049  Score=42.65  Aligned_cols=23  Identities=22%  Similarity=0.479  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+|||+++..+...-.
T Consensus        13 i~v~G~~~~GKSsli~~l~~~~~   35 (186)
T 2bme_A           13 FLVIGNAGTGKSCLLHQFIEKKF   35 (186)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCCC
Confidence            89999999999999999987543

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.12  E-value=0.0085  Score=47.99  Aligned_cols=22  Identities=27%  Similarity=0.578  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||+|+|||++|..+++..
T Consensus        37 ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           37 VLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7999999999999999999876

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.11  E-value=0.013  Score=45.63  Aligned_cols=22  Identities=32%  Similarity=0.684  Sum_probs=19.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .+++.|++|+|||+++..+...
T Consensus        11 ~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           11 KLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHCSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3899999999999999998654

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=95.10  E-value=0.068  Score=42.58  Aligned_cols=22  Identities=23%  Similarity=0.496  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        11 i~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A           11 ILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEECSTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999987653

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=95.10  E-value=0.2  Score=39.33  Aligned_cols=24  Identities=33%  Similarity=0.599  Sum_probs=20.9

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHH
Q 020071           46 MPNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .+.+++.|++|+|||+++..+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345899999999999999999764

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=95.08  E-value=0.24  Score=37.58  Aligned_cols=24  Identities=25%  Similarity=0.415  Sum_probs=20.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+++.|++|+|||+++..+...-.
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~~   25 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGEI   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCc
Confidence            378999999999999999986543

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=95.08  E-value=0.12  Score=47.44  Aligned_cols=23  Identities=30%  Similarity=0.419  Sum_probs=21.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|.+|+||||+++.+++.+.
T Consensus        42 IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           42 IVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            79999999999999999999874

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=95.06  E-value=0.026  Score=44.83  Aligned_cols=23  Identities=26%  Similarity=0.499  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+|||+++..+...-.
T Consensus        26 i~~vG~~~~GKSsl~~~l~~~~~   48 (194)
T 3reg_A           26 IVVVGDGAVGKTCLLLAFSKGEI   48 (194)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            89999999999999999987643

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.05  E-value=0.11  Score=44.48  Aligned_cols=25  Identities=40%  Similarity=0.405  Sum_probs=21.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +.+.|++|+||||++..++..+...
T Consensus       101 i~i~G~~G~GKTT~~~~la~~~~~~  125 (297)
T 1j8m_F          101 IMLVGVQGTGKTTTAGKLAYFYKKK  125 (297)
T ss_dssp             EEEECSSCSSTTHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            6889999999999999999887543

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.05  E-value=0.098  Score=49.49  Aligned_cols=41  Identities=17%  Similarity=0.275  Sum_probs=31.3

Q ss_pred             CceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          111 KHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       111 ~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      +++++++||+ ..+.......+.+.+.+...+..+|+++.+.
T Consensus       497 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~l  538 (587)
T 3qf4_A          497 KPKVLILDDCTSSVDPITEKRILDGLKRYTKGCTTFIITQKI  538 (587)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHSTTCEEEEEESCH
T ss_pred             CCCEEEEECCcccCCHHHHHHHHHHHHHhCCCCEEEEEecCh
Confidence            5789999997 4667777888888887765566677777764

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=95.05  E-value=0.065  Score=41.93  Aligned_cols=23  Identities=26%  Similarity=0.566  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+|||+++..+...-.
T Consensus         7 i~v~G~~~~GKSsli~~l~~~~~   29 (189)
T 4dsu_A            7 LVVVGADGVGKSALTIQLIQNHF   29 (189)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCCC
Confidence            89999999999999999987543

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=95.05  E-value=0.024  Score=45.69  Aligned_cols=23  Identities=22%  Similarity=0.473  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+|||+++..+...-.
T Consensus        31 i~vvG~~~vGKSsLi~~l~~~~~   53 (205)
T 1gwn_A           31 IVVVGDSQCGKTALLHVFAKDCF   53 (205)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            89999999999999999988643

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=95.04  E-value=0.073  Score=42.07  Aligned_cols=22  Identities=23%  Similarity=0.489  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        26 i~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           26 VCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEECTTSSHHHHHHHHHHCC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998754

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.04  E-value=0.016  Score=44.86  Aligned_cols=22  Identities=32%  Similarity=0.468  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||.|+||||+++.++..+
T Consensus        36 v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           36 VYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6999999999999999999987

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}

Probab=95.03  E-value=0.076  Score=54.06  Aligned_cols=40  Identities=15%  Similarity=0.254  Sum_probs=25.3

Q ss_pred             CceEEEEeCCCCCCHHH-HHHHHHHHHHhcCCcEEEEeeCC
Q 020071          111 KHKVVVLDEADSMTAGA-QQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       111 ~~~vviide~d~l~~~~-~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      +..+|||||+|++.... ...+..++...+.+..+|+.|..
T Consensus       290 ~l~lVVIDEaH~l~d~~rg~~~e~ii~~l~~~~qvl~lSAT  330 (1108)
T 3l9o_A          290 EVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSAT  330 (1108)
T ss_dssp             HEEEEEEETGGGTTSHHHHHHHHHHHHHSCTTSEEEEEECS
T ss_pred             cCCEEEEhhhhhccccchHHHHHHHHHhcCCCceEEEEcCC
Confidence            46899999999996533 33344455555556666555433

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.03  E-value=0.015  Score=47.93  Aligned_cols=24  Identities=42%  Similarity=0.715  Sum_probs=22.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++|.|++|+||||+++.+++.+..
T Consensus        29 i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           29 ITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHhc
Confidence            799999999999999999999854

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.03  E-value=0.02  Score=46.45  Aligned_cols=42  Identities=26%  Similarity=0.310  Sum_probs=29.8

Q ss_pred             hcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHH
Q 020071           18 KYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        18 ~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ..+|+++.+    ..++..    +..|.  .+.+.||.|+||||+.+.++..
T Consensus         4 ~i~pk~~g~----~~~l~~----i~~Ge--~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A            4 VIRPKTLGQ----KHYVDA----IDTNT--IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CCCCCSHHH----HHHHHH----HHHCS--EEEEECCTTSSTTHHHHHHHHH
T ss_pred             ccccCCHhH----HHHHHh----ccCCC--EEEEECCCCCCHHHHHHHHhcC
Confidence            457777732    223322    45554  3789999999999999999876

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=95.01  E-value=0.15  Score=41.89  Aligned_cols=23  Identities=22%  Similarity=0.423  Sum_probs=20.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+|||+++..+...-
T Consensus        31 ~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           31 RIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            48999999999999999998654

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=95.00  E-value=0.045  Score=42.56  Aligned_cols=23  Identities=26%  Similarity=0.504  Sum_probs=20.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus        10 ~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A           10 KVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            38999999999999999998754

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.00  E-value=0.02  Score=46.55  Aligned_cols=22  Identities=41%  Similarity=0.628  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.|++|+|||++++.+++.+
T Consensus         6 i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            6 IALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            7999999999999999999987

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=94.98  E-value=0.015  Score=47.60  Aligned_cols=23  Identities=35%  Similarity=0.544  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||+|+||||+.+.++....
T Consensus        19 i~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           19 YIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhccCC
Confidence            69999999999999999998764

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=94.96  E-value=0.12  Score=41.66  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++|.|++|+|||+++..+...
T Consensus        28 i~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           28 LLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            899999999999999998764

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=94.93  E-value=0.13  Score=40.34  Aligned_cols=22  Identities=36%  Similarity=0.363  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        25 i~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           25 LTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998754

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.93  E-value=0.1  Score=40.52  Aligned_cols=21  Identities=38%  Similarity=0.678  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +.|.|++|+|||++.+.+...
T Consensus         7 i~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            7 VVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999999865

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.91  E-value=0.038  Score=44.93  Aligned_cols=25  Identities=40%  Similarity=0.527  Sum_probs=22.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +.|.|++|+||||.++.+++.+...
T Consensus         9 i~~eG~~gsGKsT~~~~l~~~l~~~   33 (213)
T 4edh_A            9 VTLEGPEGAGKSTNRDYLAERLRER   33 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            6999999999999999999998654

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=94.90  E-value=0.016  Score=46.51  Aligned_cols=21  Identities=29%  Similarity=0.341  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +.|.|++|+||||+++.+++.
T Consensus        11 I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A           11 IGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             EEEEECTTSCHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHC
Confidence            799999999999999999985

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.89  E-value=0.016  Score=47.38  Aligned_cols=22  Identities=45%  Similarity=0.785  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.++..+
T Consensus        26 ~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           26 LVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            7999999999999999999866

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=94.89  E-value=0.014  Score=47.20  Aligned_cols=22  Identities=45%  Similarity=0.519  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.++..+
T Consensus         9 i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            9 IGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999999987

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=94.86  E-value=0.23  Score=44.81  Aligned_cols=26  Identities=38%  Similarity=0.470  Sum_probs=22.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      +.+.|+.|+||||++..++..+...+
T Consensus       101 i~i~G~~GsGKTT~~~~LA~~l~~~g  126 (425)
T 2ffh_A          101 WFLVGLQGSGKTTTAAKLALYYKGKG  126 (425)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            68889999999999999999886543

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.85  E-value=0.052  Score=43.01  Aligned_cols=21  Identities=29%  Similarity=0.588  Sum_probs=18.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||+++..+...
T Consensus        29 i~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           29 VIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHCC-
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            899999999999999998754

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=94.83  E-value=0.055  Score=42.28  Aligned_cols=23  Identities=22%  Similarity=0.560  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+|||+++..+.....
T Consensus        21 i~v~G~~~~GKSsl~~~l~~~~~   43 (183)
T 3kkq_A           21 LVVVGDGGVGKSALTIQFFQKIF   43 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCCC
Confidence            79999999999999999987643

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.82  E-value=0.055  Score=41.37  Aligned_cols=22  Identities=23%  Similarity=0.543  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7999999999999999998754

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.81  E-value=0.26  Score=41.46  Aligned_cols=22  Identities=23%  Similarity=0.534  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        42 I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           42 ILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            8999999999999999998653

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.81  E-value=0.031  Score=46.13  Aligned_cols=22  Identities=27%  Similarity=0.614  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.|++|+||||+++.+++.+
T Consensus        19 i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           19 IAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7999999999999999999988

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=94.79  E-value=0.028  Score=46.54  Aligned_cols=25  Identities=28%  Similarity=0.531  Sum_probs=22.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +.|.|++|+||||.++.+++.+...
T Consensus        30 i~~eG~~GsGKsT~~~~l~~~l~~~   54 (236)
T 3lv8_A           30 IVIEGLEGAGKSTAIQVVVETLQQN   54 (236)
T ss_dssp             EEEEESTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhc
Confidence            7999999999999999999988544

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=94.79  E-value=0.062  Score=42.78  Aligned_cols=23  Identities=26%  Similarity=0.551  Sum_probs=20.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus        30 ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           30 KIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            48999999999999999998653

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=94.78  E-value=0.062  Score=41.75  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+|||+++..+...-.
T Consensus        13 i~v~G~~~~GKssli~~l~~~~~   35 (180)
T 2g6b_A           13 VMLVGDSGVGKTCLLVRFKDGAF   35 (180)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEECcCCCCHHHHHHHHHhCCC
Confidence            89999999999999999987543

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=94.78  E-value=0.08  Score=50.01  Aligned_cols=43  Identities=14%  Similarity=0.333  Sum_probs=31.6

Q ss_pred             CceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCC
Q 020071          111 KHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSSK  153 (331)
Q Consensus       111 ~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~  153 (331)
                      +++++++||+ ..+.......+.+.+.+...+..+|+++.+.+.
T Consensus       495 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~t~i~itH~l~~  538 (578)
T 4a82_A          495 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLST  538 (578)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGGG
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence            5789999996 466777778888888766555667777776543

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=94.78  E-value=0.26  Score=39.71  Aligned_cols=25  Identities=32%  Similarity=0.563  Sum_probs=21.3

Q ss_pred             CCCeEEEeCCCCccHHHHHHHHHHH
Q 020071           45 NMPNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        45 ~~~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ..+.+++.|++|+|||+++..+...
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~   52 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQ   52 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            3445899999999999999998765

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=94.76  E-value=0.053  Score=52.68  Aligned_cols=23  Identities=30%  Similarity=0.502  Sum_probs=17.7

Q ss_pred             eEEEeCCCCccHHHHHH-HHHHHh
Q 020071           48 NLILAGPPGTGKTTSIL-ALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~-~l~~~l   70 (331)
                      +++++||+|+|||..+. .+.+.+
T Consensus        41 ~~lv~apTGsGKT~~~~l~il~~~   64 (720)
T 2zj8_A           41 NALISIPTASGKTLIAEIAMVHRI   64 (720)
T ss_dssp             EEEEECCGGGCHHHHHHHHHHHHH
T ss_pred             cEEEEcCCccHHHHHHHHHHHHHH
Confidence            69999999999998873 444333

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.75  E-value=0.032  Score=44.18  Aligned_cols=22  Identities=23%  Similarity=0.453  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        21 i~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           21 CVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998764

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=94.75  E-value=0.087  Score=49.81  Aligned_cols=43  Identities=16%  Similarity=0.316  Sum_probs=31.3

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      .+++++++||+ ..+.......+.+.+.+...+..+|+++.+.+
T Consensus       497 ~~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~~~  540 (582)
T 3b5x_A          497 RDAPVLILDEATSALDTESERAIQAALDELQKNKTVLVIAHRLS  540 (582)
T ss_pred             cCCCEEEEECccccCCHHHHHHHHHHHHHHcCCCEEEEEecCHH
Confidence            45889999997 45677777788888876655556777776643

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=94.74  E-value=0.019  Score=46.48  Aligned_cols=22  Identities=32%  Similarity=0.702  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||+|+||||+++.++..+
T Consensus        23 ~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           23 VVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            7999999999999999999876

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=94.73  E-value=0.031  Score=45.44  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=23.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      +.|.|++|+||||.++.+++.+...+
T Consensus         6 i~~eG~~gsGKsT~~~~l~~~l~~~~   31 (213)
T 4tmk_A            6 IVIEGLEGAGKTTARNVVVETLEQLG   31 (213)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            79999999999999999999986543

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=94.72  E-value=0.031  Score=51.69  Aligned_cols=44  Identities=16%  Similarity=0.117  Sum_probs=32.1

Q ss_pred             cCHHHHHHHHHHH--HcCCCCeEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           29 GNLDAVARLGIIA--RDGNMPNLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        29 g~~~~~~~l~~~l--~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ..+++.+.+++..  .......++|.|.+|+||||+++++++.+..
T Consensus       376 ~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          376 SYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            4456666666655  2222234799999999999999999999953

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=94.72  E-value=0.16  Score=49.66  Aligned_cols=41  Identities=20%  Similarity=0.117  Sum_probs=30.9

Q ss_pred             cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHH
Q 020071           29 GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .|.+++..+.+.+.++...++++.||.|+|||..+...+-.
T Consensus       372 ~Q~~ai~~I~~~l~~~~~~~~Ll~a~TGSGKTlvall~il~  412 (780)
T 1gm5_A          372 AQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILD  412 (780)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccccCCCcEEEEcCCCCCHHHHHHHHHHH
Confidence            46777777777777766556899999999999877655443

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.71  E-value=0.013  Score=45.93  Aligned_cols=39  Identities=31%  Similarity=0.320  Sum_probs=26.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      .+.|.|++|+||||+++.+...+...+...-.+.++..+
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~~~~g~~~G~I~~dg~~   42 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPILRERGLRVAVVKRHAHG   42 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHHHTTCCEEEEEC----
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCceEEEEEcCcc
Confidence            478999999999999999999885433223345555443

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=94.70  E-value=0.017  Score=49.24  Aligned_cols=21  Identities=38%  Similarity=0.539  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|+|++|+||||+++.++ .+
T Consensus        78 I~I~G~~GSGKSTva~~La-~l   98 (281)
T 2f6r_A           78 LGLTGISGSGKSSVAQRLK-NL   98 (281)
T ss_dssp             EEEEECTTSCHHHHHHHHH-HH
T ss_pred             EEEECCCCCCHHHHHHHHH-HC
Confidence            7999999999999999999 45

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=94.69  E-value=0.012  Score=47.62  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.+.|++|+||||+++.+++.+
T Consensus        24 i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           24 IGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             EEEEESTTSSHHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            6899999999999999999865

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=94.68  E-value=0.058  Score=41.38  Aligned_cols=23  Identities=22%  Similarity=0.556  Sum_probs=20.2

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC
Confidence            38999999999999999998653

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.68  E-value=0.066  Score=46.42  Aligned_cols=23  Identities=30%  Similarity=0.328  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||+|+||||+++.+...+.
T Consensus        95 igI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           95 IGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            69999999999999999998874

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=94.68  E-value=0.041  Score=44.51  Aligned_cols=21  Identities=33%  Similarity=0.648  Sum_probs=18.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||+++..+...
T Consensus        37 i~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           37 VVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEECcCCCCHHHHHHHHHcC
Confidence            899999999999999999754

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=94.67  E-value=0.043  Score=42.01  Aligned_cols=21  Identities=29%  Similarity=0.578  Sum_probs=18.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~   68 (331)
                      .+++.|++|+|||++++.+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            389999999999999998854

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.61  E-value=0.055  Score=41.57  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=19.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .+++.|++|+|||+++..+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3899999999999999999864

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=94.59  E-value=0.031  Score=43.59  Aligned_cols=23  Identities=17%  Similarity=0.326  Sum_probs=20.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus        10 ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D           10 KCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48999999999999999998653

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=94.59  E-value=0.072  Score=46.38  Aligned_cols=25  Identities=40%  Similarity=0.542  Sum_probs=22.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +.|.||+|+||||+++.++..+...
T Consensus       132 i~lvG~nGaGKTTll~~Lag~l~~~  156 (328)
T 3e70_C          132 IMFVGFNGSGKTTTIAKLANWLKNH  156 (328)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhc
Confidence            6999999999999999999887543

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=94.58  E-value=0.07  Score=42.10  Aligned_cols=22  Identities=27%  Similarity=0.545  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        24 i~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           24 YIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            8999999999999999998754

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=94.57  E-value=0.027  Score=52.25  Aligned_cols=40  Identities=23%  Similarity=0.228  Sum_probs=32.8

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ...++..+.-.+..|.  .+++.||+|+||||+++++...+.
T Consensus       246 ~~~~l~~l~~~v~~g~--~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          246 PSGVLAYLWLAIEHKF--SAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             CHHHHHHHHHHHHTTC--CEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CHHHHHHHHHHHhCCC--EEEEECCCCCCHHHHHHHHHhhCC
Confidence            4566677777777776  489999999999999999988764

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.55  E-value=0.062  Score=41.23  Aligned_cols=21  Identities=29%  Similarity=0.485  Sum_probs=18.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~   68 (331)
                      .+++.|++|+|||+++..+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            379999999999999999864

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=94.54  E-value=0.069  Score=41.31  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        17 i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           17 LVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998653

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=94.53  E-value=0.023  Score=50.70  Aligned_cols=23  Identities=30%  Similarity=0.613  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|.||+|+|||+++..+++.+.
T Consensus         5 i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            5 IVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHT
T ss_pred             EEEECcchhhHHHHHHHHHHHCC
Confidence            69999999999999999999983

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=94.53  E-value=0.27  Score=45.69  Aligned_cols=35  Identities=26%  Similarity=0.349  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ....+...+. +.  ++++.+|+|+|||..+...+...
T Consensus         9 Q~~~i~~~~~-~~--~~l~~~~tGsGKT~~~~~~~~~~   43 (555)
T 3tbk_A            9 QLELALPAKK-GK--NTIICAPTGCGKTFVSLLICEHH   43 (555)
T ss_dssp             HHHHHHHHHT-TC--CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CC--CEEEEeCCCChHHHHHHHHHHHH
Confidence            3444444443 32  59999999999998766665443

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.51  E-value=0.093  Score=42.05  Aligned_cols=23  Identities=22%  Similarity=0.556  Sum_probs=20.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus        22 ~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           22 KILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            48999999999999999998653

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=94.49  E-value=0.22  Score=48.21  Aligned_cols=20  Identities=35%  Similarity=0.461  Sum_probs=16.8

Q ss_pred             eEEEeCCCCccHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALA   67 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~   67 (331)
                      +++++||+|+|||+.+....
T Consensus        48 ~~lv~apTGsGKT~~~~l~i   67 (715)
T 2va8_A           48 RLLLTSPTGSGKTLIAEMGI   67 (715)
T ss_dssp             CEEEECCTTSCHHHHHHHHH
T ss_pred             cEEEEcCCCCcHHHHHHHHH
Confidence            59999999999999884443

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.48  E-value=0.01  Score=49.24  Aligned_cols=21  Identities=38%  Similarity=0.531  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++++|+||+|||+++..++..
T Consensus        33 ~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           33 VLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            699999999999999988754

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=94.48  E-value=0.063  Score=46.23  Aligned_cols=25  Identities=32%  Similarity=0.462  Sum_probs=22.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +.|.||+|+||||+++.++..+...
T Consensus       105 i~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          105 VLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhc
Confidence            6899999999999999999987543

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=94.47  E-value=0.12  Score=51.96  Aligned_cols=41  Identities=12%  Similarity=0.222  Sum_probs=24.9

Q ss_pred             CCceEEEEeCCCCCCHHH-HHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTAGA-QQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~~~-~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+..+|||||+|.+.... ...+.+++...+.++.+|+.|..
T Consensus       146 ~~l~lvViDEaH~l~d~~~g~~~e~ii~~l~~~v~iIlLSAT  187 (997)
T 4a4z_A          146 RDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSAT  187 (997)
T ss_dssp             GGEEEEEECCTTCCCTTCTTCCHHHHHHHSCTTCEEEEEECC
T ss_pred             cCCCEEEEECcccccccchHHHHHHHHHhcccCCCEEEEcCC
Confidence            457899999999885421 12233444444556666665443

>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase, ATP-binding, reticulum, nucleotidyltransferase, multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4} PDB: 2vbc_A 2wzq_A

Probab=94.47  E-value=0.16  Score=48.40  Aligned_cols=40  Identities=13%  Similarity=0.013  Sum_probs=23.2

Q ss_pred             CCCceEEEEeCCCCCCHHHHHHHHHHHHHh-cCCcEEEEee
Q 020071          109 PGKHKVVVLDEADSMTAGAQQALRRTMEIY-SNSTRFALAC  148 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~~~~~Ll~~le~~-~~~~~~I~~~  148 (331)
                      .....+|||||+|.+.......+..+++.. ..+..+|+.+
T Consensus       275 l~~~~~iViDEah~~~~~~~~~~~~i~~~l~~~~~q~il~S  315 (618)
T 2whx_A          275 VPNYNLIVMDEAHFTDPCSVAARGYISTRVEMGEAAAIFMT  315 (618)
T ss_dssp             CCCCSEEEEESTTCCSHHHHHHHHHHHHHHHHTSCEEEEEC
T ss_pred             ccCCeEEEEECCCCCCccHHHHHHHHHHHhcccCccEEEEE
Confidence            356789999999999654433333333322 1345555443

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=94.46  E-value=0.25  Score=46.03  Aligned_cols=35  Identities=20%  Similarity=0.364  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ....+...+. +.  ++++.+|+|+|||..+...+...
T Consensus        12 Q~~~i~~~~~-~~--~~l~~~~tGsGKT~~~~~~~~~~   46 (556)
T 4a2p_A           12 QIELAQPAIN-GK--NALICAPTGSGKTFVSILICEHH   46 (556)
T ss_dssp             HHHHHHHHHT-TC--CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHc-CC--CEEEEcCCCChHHHHHHHHHHHH
Confidence            3444444443 32  49999999999998766665443

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19

Probab=94.45  E-value=0.2  Score=41.47  Aligned_cols=31  Identities=19%  Similarity=0.302  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHH
Q 020071           31 LDAVARLGIIARDGNMPNLILAGPPGTGKTTSIL   64 (331)
Q Consensus        31 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~   64 (331)
                      +.....+...+. ++  ++++.+|+|+|||..+.
T Consensus        48 ~~Q~~~i~~i~~-~~--~~l~~a~TGsGKT~~~~   78 (253)
T 1wrb_A           48 PIQKNAIPAILE-HR--DIMACAQTGSGKTAAFL   78 (253)
T ss_dssp             HHHHHHHHHHHT-TC--CEEEECCTTSSHHHHHH
T ss_pred             HHHHHHHHHHhC-CC--CEEEECCCCChHHHHHH
Confidence            333344444443 32  59999999999997544

>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA helicase, acetyltransferase, GCN5 acetyltransferase; HET: ACO ADP; 2.35A {Escherichia coli K12}

Probab=94.42  E-value=0.21  Score=47.60  Aligned_cols=92  Identities=16%  Similarity=0.119  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccC-----
Q 020071           32 DAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVT-----  106 (331)
Q Consensus        32 ~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~-----  106 (331)
                      +..+.+...+.... ...+++|+.|.|||+++..++..+..     . +.+.++.......+.+.....  ..+.     
T Consensus       179 dQ~~al~~~~~~~~-~~~vlta~RGRGKSa~lG~~~a~~~~-----~-~~vtAP~~~a~~~l~~~~~~~--i~~~~Pd~~  249 (671)
T 2zpa_A          179 EQQQLLKQLMTMPP-GVAAVTAARGRGKSALAGQLISRIAG-----R-AIVTAPAKASTDVLAQFAGEK--FRFIAPDAL  249 (671)
T ss_dssp             HHHHHHHHHTTCCS-EEEEEEECTTSSHHHHHHHHHHHSSS-----C-EEEECSSCCSCHHHHHHHGGG--CCBCCHHHH
T ss_pred             HHHHHHHHHHHhhh-CeEEEecCCCCCHHHHHHHHHHHHHh-----C-cEEECCCHHHHHHHHHHhhCC--eEEeCchhh
Confidence            33344444443221 34799999999999999999998842     2 344555554555544433211  0000     


Q ss_pred             -CCCCCceEEEEeCCCCCCHHHHHHHH
Q 020071          107 -LPPGKHKVVVLDEADSMTAGAQQALR  132 (331)
Q Consensus       107 -~~~~~~~vviide~d~l~~~~~~~Ll  132 (331)
                       .......++||||+-.++......|+
T Consensus       250 ~~~~~~~dlliVDEAAaIp~pll~~ll  276 (671)
T 2zpa_A          250 LASDEQADWLVVDEAAAIPAPLLHQLV  276 (671)
T ss_dssp             HHSCCCCSEEEEETGGGSCHHHHHHHH
T ss_pred             hhCcccCCEEEEEchhcCCHHHHHHHH
Confidence             01234679999999999876444443

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=94.41  E-value=0.037  Score=44.58  Aligned_cols=22  Identities=18%  Similarity=0.318  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        12 i~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A           12 CVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            8999999999999999998754

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=94.39  E-value=0.23  Score=48.01  Aligned_cols=41  Identities=15%  Similarity=0.139  Sum_probs=25.9

Q ss_pred             CCceEEEEeCCCCCC----HHHHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMT----AGAQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~----~~~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+.++|||||+|.+.    ....+.++..+....++.++|+.+..
T Consensus       137 ~~~~~vIiDE~H~l~~~~r~~~~~~ll~~l~~~~~~~~ii~lSAT  181 (702)
T 2p6r_A          137 KAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSAT  181 (702)
T ss_dssp             GGCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEECC
T ss_pred             hhcCEEEEeeeeecCCCCcccHHHHHHHHHHhcCcCceEEEECCC
Confidence            356899999999864    23445555555544456666665543

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=94.36  E-value=0.022  Score=44.42  Aligned_cols=21  Identities=29%  Similarity=0.507  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++|.|++|+|||++|..+.+.
T Consensus        19 vli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           19 VLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHc
Confidence            899999999999999999884

>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}

Probab=94.34  E-value=0.1  Score=52.51  Aligned_cols=56  Identities=21%  Similarity=0.182  Sum_probs=37.4

Q ss_pred             cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           29 GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      -.+.....+...+... ...+++.++.|+|||..+-.++..+...+....++.+.+.
T Consensus       154 LrpyQ~eav~~~l~~~-~~~~LLad~tGlGKTi~Ai~~i~~l~~~g~~~rvLIVvP~  209 (968)
T 3dmq_A          154 LIPHQLNIAHDVGRRH-APRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPE  209 (968)
T ss_dssp             CCHHHHHHHHHHHHSS-SCEEEECCCTTSCHHHHHHHHHHHHHHTSSCCCEEEECCT
T ss_pred             CcHHHHHHHHHHHHhc-CCCEEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEeCH
Confidence            3566666666666654 3358999999999999988888776544333344444443

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.33  E-value=0.037  Score=47.60  Aligned_cols=22  Identities=45%  Similarity=0.667  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|+||+|+||||+++.++..+
T Consensus       129 vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          129 LAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHhhhc
Confidence            7999999999999999999987

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=94.30  E-value=0.043  Score=52.35  Aligned_cols=39  Identities=31%  Similarity=0.514  Sum_probs=29.3

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+.....+...+.+   +..++.||||+|||+++..+...+.
T Consensus       182 n~~Q~~av~~~l~~---~~~li~GppGTGKT~~~~~~i~~l~  220 (624)
T 2gk6_A          182 NHSQVYAVKTVLQR---PLSLIQGPPGTGKTVTSATIVYHLA  220 (624)
T ss_dssp             CHHHHHHHHHHHTC---SEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcC---CCeEEECCCCCCHHHHHHHHHHHHH
Confidence            56666666666542   3479999999999999888877764

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=94.29  E-value=0.055  Score=43.21  Aligned_cols=22  Identities=23%  Similarity=0.524  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        28 i~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           28 LVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            8999999999999999998754

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.28  E-value=0.028  Score=46.72  Aligned_cols=22  Identities=23%  Similarity=0.312  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +-|.||.|+||||+++.++..+
T Consensus        28 igI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           28 IGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6999999999999999999876

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.25  E-value=0.031  Score=45.00  Aligned_cols=29  Identities=14%  Similarity=0.138  Sum_probs=25.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .+.|.|+.|+|||++++.+++.+     +.+++.
T Consensus         8 iI~i~g~~GsGk~ti~~~la~~l-----g~~~~D   36 (201)
T 3fdi_A            8 IIAIGREFGSGGHLVAKKLAEHY-----NIPLYS   36 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT-----TCCEEC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHh-----CcCEEC
Confidence            37999999999999999999999     666663

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.24  E-value=0.035  Score=45.64  Aligned_cols=22  Identities=41%  Similarity=0.664  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +-|.|+||+||||.++.+++.+
T Consensus        11 ~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A           11 LILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             eeeECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999999988

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=94.23  E-value=0.076  Score=41.82  Aligned_cols=22  Identities=23%  Similarity=0.637  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        18 i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           18 ILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            8999999999999999998764

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.22  E-value=0.1  Score=41.22  Aligned_cols=23  Identities=22%  Similarity=0.499  Sum_probs=20.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus        10 ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A           10 RVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCC
Confidence            48999999999999999998753

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=94.19  E-value=0.051  Score=43.36  Aligned_cols=21  Identities=19%  Similarity=0.363  Sum_probs=3.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||+++..+...
T Consensus        23 i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           23 VAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEC-----------------
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999998765

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=94.16  E-value=0.047  Score=42.65  Aligned_cols=22  Identities=32%  Similarity=0.650  Sum_probs=8.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus        11 i~v~G~~~~GKssl~~~l~~~~   32 (183)
T 2fu5_C           11 LLLIGDSGVGKTCVLFRFSEDA   32 (183)
T ss_dssp             EEEECCCCC-------------
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999987643

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A

Probab=94.15  E-value=0.22  Score=45.38  Aligned_cols=21  Identities=29%  Similarity=0.458  Sum_probs=15.7

Q ss_pred             eEEEeCCCCccHHHH-HHHHHH
Q 020071           48 NLILAGPPGTGKTTS-ILALAH   68 (331)
Q Consensus        48 ~~ll~G~~G~GKt~l-a~~l~~   68 (331)
                      .+++.||+|+|||.. +..+..
T Consensus        21 ~~lv~a~TGsGKT~~~~~~~l~   42 (451)
T 2jlq_A           21 LTIMDLHPGAGKTKRILPSIVR   42 (451)
T ss_dssp             EEEECCCTTSSCCTTHHHHHHH
T ss_pred             eEEEECCCCCCHhhHHHHHHHH
Confidence            369999999999983 444443

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.15  E-value=0.017  Score=47.52  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=14.3

Q ss_pred             EEEeCCCCccHHHHHHHHH-HHh
Q 020071           49 LILAGPPGTGKTTSILALA-HEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~-~~l   70 (331)
                      +.|.||+|+||||+++.++ ..+
T Consensus        30 i~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           30 LVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEECSCC----CHHHHHHC---
T ss_pred             EEEECCCCCCHHHHHHHHHhcCC
Confidence            6999999999999999999 765

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.14  E-value=0.097  Score=42.59  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.|++|+||||.++.+++.+.
T Consensus         8 i~~eG~~g~GKst~~~~l~~~l~   30 (216)
T 3tmk_A            8 ILIEGLDRTGKTTQCNILYKKLQ   30 (216)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            79999999999999999999984

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=94.09  E-value=0.046  Score=56.81  Aligned_cols=60  Identities=12%  Similarity=0.270  Sum_probs=38.1

Q ss_pred             CceEEEEeCCC-CCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCCh----hhhcccceeeecCC
Q 020071          111 KHKVVVLDEAD-SMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIE----PIQSRCAIVRFSRL  170 (331)
Q Consensus       111 ~~~vviide~d-~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~----~l~sr~~~i~~~~~  170 (331)
                      +.+++++||+- .+..+....+.+.+++...++.+|+++.+.+-+..    -..+.+.++++..+
T Consensus      1235 ~~~ILiLDEaTSaLD~~tE~~Iq~~l~~~~~~~TvI~IAHRLsTi~~aD~I~Vld~G~IvE~Gth 1299 (1321)
T 4f4c_A         1235 NPKILLLDEATSALDTESEKVVQEALDRAREGRTCIVIAHRLNTVMNADCIAVVSNGTIIEKGTH 1299 (1321)
T ss_dssp             CCSEEEEESCCCSTTSHHHHHHHHHHTTTSSSSEEEEECSSSSTTTTCSEEEEESSSSEEEEECH
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHcCCCEEEEeccCHHHHHhCCEEEEEECCEEEEECCH
Confidence            47899999984 44556667778888876666777777776443211    01233555666654

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=94.09  E-value=0.038  Score=43.69  Aligned_cols=24  Identities=25%  Similarity=0.502  Sum_probs=20.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+++.|++|+|||+++..+...-.
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~~~   50 (193)
T 2oil_A           27 KVVLIGESGVGKTNLLSRFTRNEF   50 (193)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSCC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCC
Confidence            389999999999999999987543

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=94.06  E-value=0.1  Score=48.70  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=21.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +++.||+|+|||++++.++.....
T Consensus       284 ~~i~G~~GsGKSTLl~~l~g~~~~  307 (525)
T 1tf7_A          284 ILATGATGTGKTLLVSRFVENACA  307 (525)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHh
Confidence            699999999999999999987654

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A

Probab=94.05  E-value=0.37  Score=45.07  Aligned_cols=39  Identities=18%  Similarity=0.171  Sum_probs=23.8

Q ss_pred             CCceEEEEeCCCCCC----HHHHHHHHHHHHHhc----CCcEEEEee
Q 020071          110 GKHKVVVLDEADSMT----AGAQQALRRTMEIYS----NSTRFALAC  148 (331)
Q Consensus       110 ~~~~vviide~d~l~----~~~~~~Ll~~le~~~----~~~~~I~~~  148 (331)
                      ..-.+|||||+|.+.    ......+...+....    .++.+++.|
T Consensus       225 ~~~~~lViDEah~l~~~~f~~~~~~i~~~l~~~~~~~~~~~~~l~~S  271 (563)
T 3i5x_A          225 RFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFS  271 (563)
T ss_dssp             TTCCEEEEETHHHHTSTTTHHHHHHHHHHHHHHCSSCTTCCEEEEEE
T ss_pred             ccceEEEEeCHHHHhccchHHHHHHHHHhhhhccccCccCceEEEEE
Confidence            456899999999874    344555655554322    244555544

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=94.05  E-value=0.027  Score=47.80  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|+||+|+|||+++..++..+.
T Consensus        33 ~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           33 GALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHh
Confidence            69999999999999999997654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.04  E-value=0.21  Score=46.56  Aligned_cols=42  Identities=5%  Similarity=0.101  Sum_probs=32.6

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      .+++++++||. ..|.......+.+++.+...+..+|+++.+.
T Consensus       155 ~~p~illlDEPts~LD~~~~~~l~~~l~~l~~g~tii~vsHdl  197 (538)
T 3ozx_A          155 READVYIFDQPSSYLDVRERMNMAKAIRELLKNKYVIVVDHDL  197 (538)
T ss_dssp             SCCSEEEEESTTTTCCHHHHHHHHHHHHHHCTTSEEEEECSCH
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHhCCCEEEEEEeCh
Confidence            35789999996 5778888888888888765566677777654

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=94.04  E-value=0.073  Score=46.59  Aligned_cols=23  Identities=43%  Similarity=0.603  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.|++|+||||+.+.++..+.
T Consensus        58 v~i~G~~GaGKSTLl~~l~g~~~   80 (337)
T 2qm8_A           58 VGITGVPGVGKSTTIDALGSLLT   80 (337)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhhh
Confidence            79999999999999999998764

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.97  E-value=0.026  Score=46.44  Aligned_cols=23  Identities=30%  Similarity=0.473  Sum_probs=18.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.|++|+||||.++.+++.+.
T Consensus        28 I~~eG~~GsGKsT~~~~l~~~l~   50 (227)
T 3v9p_A           28 ITFEGIDGAGKTTHLQWFCDRLQ   50 (227)
T ss_dssp             EEEECCC---CHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999999884

>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system, helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP; 2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*

Probab=93.97  E-value=0.36  Score=48.71  Aligned_cols=24  Identities=21%  Similarity=0.144  Sum_probs=19.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.+++.+.|+|||.++-.+++.+.
T Consensus       302 ~gli~~~TGSGKT~t~~~l~~ll~  325 (1038)
T 2w00_A          302 GGYIWHTTGSGKTLTSFKAARLAT  325 (1038)
T ss_dssp             SEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEecCCCCHHHHHHHHHHHHH
Confidence            489999999999999877776553

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=93.94  E-value=0.077  Score=46.51  Aligned_cols=24  Identities=38%  Similarity=0.588  Sum_probs=21.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+.+.|++|+||||++..++..+.
T Consensus        58 ~i~i~G~~g~GKSTl~~~l~~~~~   81 (341)
T 2p67_A           58 RLGVTGTPGAGKSTFLEAFGMLLI   81 (341)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            479999999999999999988764

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=93.94  E-value=0.036  Score=47.96  Aligned_cols=24  Identities=29%  Similarity=0.315  Sum_probs=21.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +.|.||+|+||||+++.++..+..
T Consensus        93 vgI~G~sGsGKSTL~~~L~gll~~  116 (312)
T 3aez_A           93 IGVAGSVAVGKSTTARVLQALLAR  116 (312)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             EEEECCCCchHHHHHHHHHhhccc
Confidence            699999999999999999998753

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=93.93  E-value=0.081  Score=42.28  Aligned_cols=23  Identities=30%  Similarity=0.628  Sum_probs=20.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y           10 KLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            38999999999999999998754

>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA compl protease/ntpase/helicase, hydrolase; 1.95A {Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4b71_A* 4b73_A* 4b74_A* 4b76_A* 4b75_A* 4a92_A* 1cu1_A 4b6e_A* 4b6f_A* 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A* 3kqh_A 3kqk_A ...

Probab=93.88  E-value=0.32  Score=46.49  Aligned_cols=42  Identities=10%  Similarity=0.135  Sum_probs=26.8

Q ss_pred             CCCceEEEEeCCCCCCHHHHHHHHHHHHHhcC---CcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTAGAQQALRRTMEIYSN---STRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~~~~~Ll~~le~~~~---~~~~I~~~~~  150 (331)
                      ..+.+++||||++.+.......+..+++..+.   ...++++++.
T Consensus       316 l~~l~~lVlDEAH~l~~~~~~~l~~Il~~l~~~~~~llil~SAT~  360 (666)
T 3o8b_A          316 GGAYDIIICDECHSTDSTTILGIGTVLDQAETAGARLVVLATATP  360 (666)
T ss_dssp             TTSCSEEEETTTTCCSHHHHHHHHHHHHHTTTTTCSEEEEEESSC
T ss_pred             cCcccEEEEccchhcCccHHHHHHHHHHhhhhcCCceEEEECCCC
Confidence            34578999999998887665556666664432   2234445543

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=93.88  E-value=0.19  Score=52.26  Aligned_cols=24  Identities=33%  Similarity=0.397  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+.++||+|+||||+++.+...+.
T Consensus       446 ~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          446 TVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             EEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             EEEEEecCCCcHHHHHHHhccccc
Confidence            379999999999999999988764

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=93.88  E-value=0.3  Score=47.58  Aligned_cols=22  Identities=27%  Similarity=0.382  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||.|+||||+.+.++...
T Consensus       579 ~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          579 VLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             EEEESCSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHhhh
Confidence            6999999999999999998754

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=93.87  E-value=0.056  Score=43.35  Aligned_cols=26  Identities=35%  Similarity=0.454  Sum_probs=22.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN   74 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~   74 (331)
                      +.|.|+.|+||||.++.+++.+...+
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g   28 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRG   28 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC
Confidence            47899999999999999999986553

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.76  E-value=0.032  Score=46.22  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.|++|+||||+++.+++.+.
T Consensus         5 i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            5 LSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcC
Confidence            79999999999999999999873

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.75  E-value=0.1  Score=45.88  Aligned_cols=25  Identities=40%  Similarity=0.557  Sum_probs=21.8

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           47 PNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.+.|.|+||+||||+...+...+.
T Consensus        75 ~~v~lvG~pgaGKSTLln~L~~~~~   99 (349)
T 2www_A           75 FRVGLSGPPGAGKSTFIEYFGKMLT   99 (349)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            3479999999999999999998653

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=93.74  E-value=0.093  Score=41.83  Aligned_cols=22  Identities=23%  Similarity=0.530  Sum_probs=19.2

Q ss_pred             eEEEeCCCCccHHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .+++.|++|+|||+++..+...
T Consensus        27 ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           27 KFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHC-
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            3899999999999999998754

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=93.72  E-value=0.049  Score=47.03  Aligned_cols=23  Identities=30%  Similarity=0.384  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||+|+||||+++.++..+.
T Consensus        83 igI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           83 ISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            69999999999999999999774

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=93.72  E-value=0.077  Score=52.05  Aligned_cols=40  Identities=30%  Similarity=0.493  Sum_probs=29.6

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .+.....+...+.+   +..++.||||||||+++..++..+..
T Consensus       358 n~~Q~~Av~~~l~~---~~~lI~GppGTGKT~ti~~~i~~l~~  397 (800)
T 2wjy_A          358 NHSQVYAVKTVLQR---PLSLIQGPPGTGKTVTSATIVYHLAR  397 (800)
T ss_dssp             CHHHHHHHHHHHTS---SEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHhccC---CeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            45566666665542   34799999999999998888877653

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.71  E-value=0.059  Score=47.66  Aligned_cols=35  Identities=31%  Similarity=0.393  Sum_probs=28.0

Q ss_pred             HHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           35 ARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        35 ~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ..+.-.+..|.  .++|.||+|+||||+++.++..+.
T Consensus       166 ~~l~~~i~~G~--~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          166 SFLRRAVQLER--VIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             HHHHHHHHTTC--CEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             HHHHHHHhcCC--EEEEECCCCCCHHHHHHHHHhcCC
Confidence            44555566665  489999999999999999998764

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.68  E-value=0.059  Score=50.46  Aligned_cols=43  Identities=23%  Similarity=0.143  Sum_probs=30.4

Q ss_pred             CHHHHHHHHHHHHc-CCCCe-EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           30 NLDAVARLGIIARD-GNMPN-LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        30 ~~~~~~~l~~~l~~-~~~~~-~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .+++...+++.... +..+. ++|+|++|+||||+++.+++.+..
T Consensus       354 r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          354 RPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             CHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            45555566665521 22223 799999999999999999998753

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=93.64  E-value=0.12  Score=41.37  Aligned_cols=22  Identities=23%  Similarity=0.534  Sum_probs=19.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .+.|.|++|+||||+.+.+...
T Consensus        28 ~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           28 EVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             EEEEEECTTSSHHHHHTTTCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3899999999999999988754

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=93.64  E-value=0.036  Score=47.48  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|.||+|+|||++++.++..+.
T Consensus        38 ~~i~G~~G~GKTTl~~~ia~~~~   60 (296)
T 1cr0_A           38 IMVTSGSGMGKSTFVRQQALQWG   60 (296)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            69999999999999999998764

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=93.61  E-value=0.039  Score=43.35  Aligned_cols=23  Identities=26%  Similarity=0.262  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+|+||.|+|||+++.++.-.+.
T Consensus        29 ~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           29 TAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc
Confidence            59999999999999999998774

>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A*

Probab=93.59  E-value=0.1  Score=47.44  Aligned_cols=22  Identities=32%  Similarity=0.445  Sum_probs=17.0

Q ss_pred             eEEEeCCCCccHHHHH-HHHHHH
Q 020071           48 NLILAGPPGTGKTTSI-LALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la-~~l~~~   69 (331)
                      ++++.||+|+|||..+ ..+.+.
T Consensus        10 ~vlv~a~TGSGKT~~~l~~~l~~   32 (440)
T 1yks_A           10 TTVLDFHPGAGKTRRFLPQILAE   32 (440)
T ss_dssp             EEEECCCTTSSTTTTHHHHHHHH
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            5899999999999864 444443

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=93.58  E-value=0.043  Score=48.75  Aligned_cols=23  Identities=30%  Similarity=0.712  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.||+|+||||+++.++..+.
T Consensus       139 i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          139 ILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhhcC
Confidence            79999999999999999998774

>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus}

Probab=93.57  E-value=0.28  Score=47.09  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=17.0

Q ss_pred             eEEEeCCCCccHHHHH-HHHHHH
Q 020071           48 NLILAGPPGTGKTTSI-LALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la-~~l~~~   69 (331)
                      ++++.||+|+|||..+ ..+.+.
T Consensus       243 dvlv~apTGSGKTl~~ll~il~~  265 (673)
T 2wv9_A          243 LTVLDLHPGAGKTRRILPQIIKD  265 (673)
T ss_dssp             EEEECCCTTTTTTTTHHHHHHHH
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHH
Confidence            5899999999999863 444444

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=93.57  E-value=0.043  Score=43.77  Aligned_cols=22  Identities=23%  Similarity=0.487  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.+.|++|+|||++.+.+....
T Consensus         8 v~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            8 VVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7999999999999999998864

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.53  E-value=0.047  Score=46.97  Aligned_cols=24  Identities=46%  Similarity=0.663  Sum_probs=21.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +.|.||.|+||||+++.++..+..
T Consensus       103 i~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A          103 IMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            699999999999999999998753

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=93.52  E-value=0.46  Score=44.71  Aligned_cols=39  Identities=18%  Similarity=0.171  Sum_probs=23.8

Q ss_pred             CCceEEEEeCCCCCC----HHHHHHHHHHHHHhc----CCcEEEEee
Q 020071          110 GKHKVVVLDEADSMT----AGAQQALRRTMEIYS----NSTRFALAC  148 (331)
Q Consensus       110 ~~~~vviide~d~l~----~~~~~~Ll~~le~~~----~~~~~I~~~  148 (331)
                      ..-.+|||||+|.+.    ......++..+....    .++.+++.|
T Consensus       174 ~~~~~lViDEah~l~~~gf~~~~~~i~~~l~~~~~~~~~~~~~l~~S  220 (579)
T 3sqw_A          174 RFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFS  220 (579)
T ss_dssp             TTCCEEEEETHHHHTSTTTHHHHHHHHHHHHHHCSSCTTCCEEEEEE
T ss_pred             ccCCEEEEEChHHhhcCCCHHHHHHHHHHhhhhhcccccCceEEEEe
Confidence            456799999999874    344555666655432    244555443

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=93.49  E-value=0.092  Score=43.80  Aligned_cols=34  Identities=32%  Similarity=0.521  Sum_probs=26.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      +++.|.+|+||||++..++..+. .+....++..+
T Consensus        17 ~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vvd~D   50 (262)
T 1yrb_A           17 VVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLD   50 (262)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECC
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEEeCC
Confidence            69999999999999999999886 54444344433

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=93.46  E-value=0.33  Score=48.38  Aligned_cols=20  Identities=35%  Similarity=0.416  Sum_probs=18.1

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      ++|.||.|+||||+.+.++-
T Consensus       665 ~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          665 HIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            69999999999999999843

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=93.46  E-value=0.064  Score=40.86  Aligned_cols=24  Identities=25%  Similarity=0.364  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .+|+||.|+|||++..++.-.+.+
T Consensus        26 ~~I~G~NGsGKStil~Ai~~~l~g   49 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAILVGLYW   49 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcC
Confidence            599999999999999999877643

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=93.46  E-value=0.38  Score=47.80  Aligned_cols=20  Identities=35%  Similarity=0.564  Sum_probs=18.3

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      +.|.||.|+||||+.+.++.
T Consensus       676 ~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          676 MIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             EEEESCCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCchHHHHHHHHH
Confidence            69999999999999998864

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=93.45  E-value=1.1  Score=38.36  Aligned_cols=133  Identities=14%  Similarity=0.132  Sum_probs=65.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCC---C---C-----------CceEEeecCCCCC-hHhHHHHHHHHHhcccCCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPN---Y---R-----------EAVMELNASDDRG-IDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~---~---~-----------~~~~~~~~~~~~~-~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      +.+.|.+|+||||+...+...-....   .   .           ..+.-++.+.... ...+.+.+.......+  ...
T Consensus        10 V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l--~~a   87 (301)
T 1wf3_A           10 VAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEAL--ADV   87 (301)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHT--SSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCCcEEEEecCccccchhhHHHHHHHHHHHHHH--hcC
Confidence            79999999999999999986532210   0   0           0111122222111 1122222222222211  134


Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCCh------hhhcc---cceeeecCCCHHHHHHHHHH
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIE------PIQSR---CAIVRFSRLSDEEILSRLMV  181 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~------~l~sr---~~~i~~~~~~~~~~~~~l~~  181 (331)
                      +.-++++|=-+.++.. ...+++.+.....+..+|++.|..+...+      .+...   ..++.+...+...+...+..
T Consensus        88 d~il~VvD~~~~~~~~-~~~i~~~l~~~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~iSA~~g~gv~~l~~~  166 (301)
T 1wf3_A           88 NAVVWVVDLRHPPTPE-DELVARALKPLVGKVPILLVGNKLDAAKYPEEAMKAYHELLPEAEPRMLSALDERQVAELKAD  166 (301)
T ss_dssp             SEEEEEEETTSCCCHH-HHHHHHHHGGGTTTSCEEEEEECGGGCSSHHHHHHHHHHTSTTSEEEECCTTCHHHHHHHHHH
T ss_pred             CEEEEEEECCCCCChH-HHHHHHHHHhhcCCCCEEEEEECcccCCchHHHHHHHHHhcCcCcEEEEeCCCCCCHHHHHHH
Confidence            5567777755666544 34555566554335667777776543321      11111   12344445555555555555


Q ss_pred             HHH
Q 020071          182 VVQ  184 (331)
Q Consensus       182 ~~~  184 (331)
                      ...
T Consensus       167 l~~  169 (301)
T 1wf3_A          167 LLA  169 (301)
T ss_dssp             HHT
T ss_pred             HHH
Confidence            443

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=93.41  E-value=0.04  Score=43.45  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++++|++|+|||++|..++..
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            589999999999999999865

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.40  E-value=0.046  Score=45.38  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=21.1

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+.+.||.|+||||+.+.++..+.
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~~   49 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999987653

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=93.39  E-value=0.041  Score=43.65  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.+.|++|+|||++++.+.....
T Consensus        32 v~lvG~~g~GKSTLl~~l~~~~~   54 (191)
T 1oix_A           32 VVLIGDSGVGKSNLLSRFTRNEF   54 (191)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSCC
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            79999999999999999998653

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=93.39  E-value=0.037  Score=45.77  Aligned_cols=22  Identities=27%  Similarity=0.477  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||.|+||||+.+.++..+
T Consensus        34 ~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           34 VSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            7999999999999999998765

>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos}

Probab=93.38  E-value=0.51  Score=46.32  Aligned_cols=37  Identities=19%  Similarity=0.301  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           31 LDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        31 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.....+...+. +.  ++++.+|.|+|||..+...+...
T Consensus       251 ~~Q~~~i~~~l~-~~--~~ll~~~TGsGKTl~~~~~i~~~  287 (797)
T 4a2q_A          251 SYQIELAQPAIN-GK--NALICAPTGSGKTFVSILICEHH  287 (797)
T ss_dssp             HHHHHHHHHHHT-TC--CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-CC--CEEEEeCCCChHHHHHHHHHHHH
Confidence            444444444443 32  59999999999998776665544

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=93.36  E-value=0.53  Score=40.41  Aligned_cols=21  Identities=29%  Similarity=0.502  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||++...+...
T Consensus         6 I~lvG~~~vGKSSLi~~l~~~   26 (307)
T 3r7w_A            6 LLLMGRSGSGKSSMRSIIFSN   26 (307)
T ss_dssp             EEEECCTTSSHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            899999999999999997754

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=93.36  E-value=0.058  Score=50.81  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=21.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|.|.+|+||||+++.+++.+.
T Consensus       399 I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          399 IFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEeecCCCCCHHHHHHHHHHHhc
Confidence            79999999999999999999984

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=93.32  E-value=0.029  Score=47.99  Aligned_cols=22  Identities=18%  Similarity=0.403  Sum_probs=17.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.+.|++|+||||+++.+++.+
T Consensus         8 IgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            8 ISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             EEEESCC---CCTHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7999999999999999999977

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=93.31  E-value=0.31  Score=45.96  Aligned_cols=42  Identities=14%  Similarity=0.309  Sum_probs=31.0

Q ss_pred             CceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          111 KHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       111 ~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      +++++++||+ ..+.......+.+.+.+...+..+|+++.+.+
T Consensus       498 ~p~illlDEpts~LD~~~~~~i~~~l~~~~~~~tvi~itH~~~  540 (582)
T 3b60_A          498 DSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS  540 (582)
T ss_dssp             CCSEEEEETTTSSCCHHHHHHHHHHHHHHHTTSEEEEECSCGG
T ss_pred             CCCEEEEECccccCCHHHHHHHHHHHHHHhCCCEEEEEeccHH
Confidence            5789999997 46677777888888876554566777777654

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=93.28  E-value=0.041  Score=44.71  Aligned_cols=20  Identities=45%  Similarity=0.561  Sum_probs=17.9

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      +++.|++|+|||+++..+..
T Consensus        18 i~v~G~~~~GKSsli~~~~~   37 (221)
T 3gj0_A           18 LVLVGDGGTGKTTFVKRHLT   37 (221)
T ss_dssp             EEEEECTTSSHHHHHTTBHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            89999999999999999443

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}

Probab=93.27  E-value=0.37  Score=43.59  Aligned_cols=16  Identities=31%  Similarity=0.657  Sum_probs=14.1

Q ss_pred             eEEEeCCCCccHHHHH
Q 020071           48 NLILAGPPGTGKTTSI   63 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la   63 (331)
                      ++++.+|+|+|||...
T Consensus        95 d~i~~a~TGsGKT~a~  110 (434)
T 2db3_A           95 DLMACAQTGSGKTAAF  110 (434)
T ss_dssp             CEEEECCTTSSHHHHH
T ss_pred             CEEEECCCCCCchHHH
Confidence            5999999999999843

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=93.26  E-value=0.02  Score=48.20  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=21.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.|++|+||||+++.+++.+
T Consensus        26 ~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           26 KISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            37999999999999999999987

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=93.26  E-value=0.051  Score=51.49  Aligned_cols=23  Identities=43%  Similarity=0.598  Sum_probs=21.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|.|.+|+||||+++.+++.+.
T Consensus        55 IvLtGlsGSGKSTlAr~La~~L~   77 (630)
T 1x6v_B           55 VWLTGLSGAGKTTVSMALEEYLV   77 (630)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            79999999999999999999884

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.19  E-value=0.068  Score=50.04  Aligned_cols=23  Identities=39%  Similarity=0.598  Sum_probs=21.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.|++|+||||+++.++..+.
T Consensus       372 I~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          372 VFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCChHHHHHHHHHHhhc
Confidence            79999999999999999999885

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=92.30  E-value=0.016  Score=46.48  Aligned_cols=22  Identities=18%  Similarity=0.406  Sum_probs=19.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .+++.|++|+|||+++..+...
T Consensus        32 ki~v~G~~~~GKSsli~~l~~~   53 (204)
T 3th5_A           32 KCVVVGDGAVGKTCLLISYTTN   53 (204)
Confidence            4899999999999999888754

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.17  E-value=0.043  Score=43.14  Aligned_cols=20  Identities=40%  Similarity=0.682  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      +++.|++|+|||++++.++.
T Consensus         5 v~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            5 LMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEESCTTSSHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            89999999999999999876

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.16  E-value=0.063  Score=43.34  Aligned_cols=23  Identities=43%  Similarity=0.762  Sum_probs=21.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.|+.|+||||.++.+++.+.
T Consensus         5 I~~EG~dGsGKsTq~~~L~~~L~   27 (205)
T 4hlc_A            5 ITFEGPEGSGKTTVINEVYHRLV   27 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHH
Confidence            68999999999999999999984

>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos}

Probab=93.16  E-value=0.8  Score=45.83  Aligned_cols=38  Identities=18%  Similarity=0.310  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           31 LDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        31 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.....+...+. |.  ++++.+|.|+|||..+...+....
T Consensus       251 ~~Q~~ai~~il~-g~--~~ll~a~TGsGKTl~~~~~i~~~l  288 (936)
T 4a2w_A          251 SYQIELAQPAIN-GK--NALICAPTGSGKTFVSILICEHHF  288 (936)
T ss_dssp             HHHHHHHHHHHT-TC--CEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHc-CC--CEEEEeCCCchHHHHHHHHHHHHH
Confidence            334444444443 32  599999999999988777766553

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=93.13  E-value=0.043  Score=45.45  Aligned_cols=43  Identities=9%  Similarity=0.085  Sum_probs=30.8

Q ss_pred             CceEEEEeCC-CCCCHHHHHHHHHHHH---HhcCCcEEEEeeCCCCC
Q 020071          111 KHKVVVLDEA-DSMTAGAQQALRRTME---IYSNSTRFALACNVSSK  153 (331)
Q Consensus       111 ~~~vviide~-d~l~~~~~~~Ll~~le---~~~~~~~~I~~~~~~~~  153 (331)
                      +++++++||. ..+.......+.+.+.   ....+..+|+++.+...
T Consensus       145 ~p~lllLDEPts~LD~~~~~~i~~~l~~~~~~~~~~tviivtH~~~~  191 (237)
T 2cbz_A          145 NADIYLFDDPLSAVDAHVGKHIFENVIGPKGMLKNKTRILVTHSMSY  191 (237)
T ss_dssp             CCSEEEEESTTTTSCHHHHHHHHHHTTSTTSTTTTSEEEEECSCSTT
T ss_pred             CCCEEEEeCcccccCHHHHHHHHHHHHHHHhhcCCCEEEEEecChHH
Confidence            5789999996 5677888888888883   22335567777776554

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.12  E-value=0.072  Score=41.25  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=20.4

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHH
Q 020071           47 PNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +.+++.|++|+|||+++..+...
T Consensus         9 ~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            9 PVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999999764

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=93.12  E-value=0.23  Score=45.56  Aligned_cols=105  Identities=14%  Similarity=0.206  Sum_probs=46.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc--CCC---CCC----ceEEee-----cCCCCChHhHHHHHHHH--HhcccCCCCCCc
Q 020071           49 LILAGPPGTGKTTSILALAHELL--GPN---YRE----AVMELN-----ASDDRGIDVVRNKIKMF--AQKKVTLPPGKH  112 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~--~~~---~~~----~~~~~~-----~~~~~~~~~i~~~i~~~--~~~~~~~~~~~~  112 (331)
                      +.|.|++|+|||++...+...-.  ...   ...    ..+.++     -.|..|.....+.++.+  ..........+.
T Consensus       236 V~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~  315 (476)
T 3gee_A          236 TVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDKTMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADL  315 (476)
T ss_dssp             EEEECCTTSSHHHHHHHCC------------------CEEEEETTEEEEEEC--------------------CCCSSCSE
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCE
Confidence            89999999999999999876521  000   000    111111     11222222222222221  111111224556


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCC
Q 020071          113 KVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKI  154 (331)
Q Consensus       113 ~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l  154 (331)
                      -++++|--+..+....+....+++... +..+|++.|.....
T Consensus       316 vl~VvD~s~~~s~~~~~~~~~~l~~l~-~~piIvV~NK~Dl~  356 (476)
T 3gee_A          316 ILYLLDLGTERLDDELTEIRELKAAHP-AAKFLTVANKLDRA  356 (476)
T ss_dssp             EEEEEETTTCSSGGGHHHHHHHHHHCT-TSEEEEEEECTTSC
T ss_pred             EEEEEECCCCcchhhhHHHHHHHHhcC-CCCEEEEEECcCCC
Confidence            677777665555433334455555544 56777777765543

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=93.12  E-value=0.055  Score=41.64  Aligned_cols=21  Identities=43%  Similarity=0.605  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +.+.|++|+|||++.+.+...
T Consensus         6 v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            6 IALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            799999999999999999763

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=93.11  E-value=0.056  Score=41.72  Aligned_cols=23  Identities=35%  Similarity=0.556  Sum_probs=19.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+++.|++|+|||+++..+...-
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEECCCCccHHHHHHHHhcCC
Confidence            38999999999999999987543

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=93.09  E-value=0.056  Score=50.30  Aligned_cols=23  Identities=30%  Similarity=0.419  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|.||+||||+++.+++.+.
T Consensus        38 IvlvGlpGSGKSTia~~La~~L~   60 (520)
T 2axn_A           38 IVMVGLPARGKTYISKKLTRYLN   60 (520)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            69999999999999999999874

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=93.09  E-value=0.046  Score=44.51  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||.|+||||+.+.++..+.
T Consensus        38 ~~iiG~NGsGKSTLlk~l~Gl~~   60 (214)
T 1sgw_A           38 VNFHGPNGIGKTTLLKTISTYLK   60 (214)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            78999999999999999987653

>3czq_A Putative polyphosphate kinase 2; structural genomics, APC6299, PSI-2, structure initiative; HET: MSE GOL; 2.23A {Sinorhizobium meliloti}

Probab=93.07  E-value=0.15  Score=43.64  Aligned_cols=37  Identities=14%  Similarity=0.139  Sum_probs=28.0

Q ss_pred             HHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           37 LGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        37 l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ++..+...+.+. ++|-|..|+||++.++.+...+...
T Consensus        76 lQ~~~~~~~~~vlIvfEG~DgAGKgt~Ik~L~e~Ldpr  113 (304)
T 3czq_A           76 VQFWMQATGKRVMAVFEGRDAAGKGGAIHATTANMNPR  113 (304)
T ss_dssp             HHHHHHHHCCCEEEEEEESTTSSHHHHHHHHHTTSCTT
T ss_pred             HHHHHHHcCCCeEEEEeCCCCCCHHHHHHHHHHHhccc
Confidence            344444444455 6999999999999999999998543

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.06  E-value=0.054  Score=45.80  Aligned_cols=24  Identities=29%  Similarity=0.531  Sum_probs=21.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+.+.||+|+||||+.+.++....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            378999999999999999998764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.03  E-value=0.038  Score=45.30  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.||.|+||||+.+.++..+
T Consensus        33 ~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           33 VSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998765

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B

Probab=93.01  E-value=0.15  Score=54.32  Aligned_cols=32  Identities=19%  Similarity=0.342  Sum_probs=22.7

Q ss_pred             HHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHH
Q 020071           34 VARLGIIARDGNMPNLILAGPPGTGKTTSILALA   67 (331)
Q Consensus        34 ~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~   67 (331)
                      .+.+...+.++.  ++++.+|+|+|||.++....
T Consensus       932 ~q~~~~l~~~~~--nvlv~APTGSGKTliaelai  963 (1724)
T 4f92_B          932 TQVFNTVYNSDD--NVFVGAPTGSGKTICAEFAI  963 (1724)
T ss_dssp             HHHHHHHHSCCS--CEEEECCTTSCCHHHHHHHH
T ss_pred             HHHHHHHhcCCC--cEEEEeCCCCCchHHHHHHH
Confidence            334444444444  69999999999999876544

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=92.97  E-value=0.067  Score=43.82  Aligned_cols=28  Identities=21%  Similarity=0.213  Sum_probs=24.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      +.+.|++|+|||++++.+++.+     +.+++.
T Consensus        17 I~i~g~~gsGk~~i~~~la~~l-----g~~~~d   44 (223)
T 3hdt_A           17 ITIEREYGSGGRIVGKKLAEEL-----GIHFYD   44 (223)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH-----TCEEEC
T ss_pred             EEEeCCCCCCHHHHHHHHHHHc-----CCcEEc
Confidence            6999999999999999999999     555543

---

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	331
d1sxjb2	224	c.37.1.20 (B:7-230) Replication factor C4 {Baker's	1e-52
d1iqpa2	231	c.37.1.20 (A:2-232) Replication factor C {Archaeon	1e-51
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	2e-46
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	2e-40
d1sxjc2	227	c.37.1.20 (C:12-238) Replication factor C3 {Baker'	1e-38
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	6e-30
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	1e-28
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	6e-27
d1sxjb1	92	a.80.1.1 (B:231-322) Replication factor C4 {Baker'	1e-25
d1sxjc1	95	a.80.1.1 (C:239-333) Replication factor C3 {Baker'	4e-23
d1iqpa1	95	a.80.1.1 (A:233-327) Replication factor C {Archaeo	2e-22
d1sxjd1	91	a.80.1.1 (D:263-353) Replication factor C2 {Baker'	4e-21
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	2e-20
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	5e-19
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	4e-17
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	8e-17
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	2e-07
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	2e-06
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	8e-06
d2qy9a2	211	c.37.1.10 (A:285-495) GTPase domain of the signal	1e-04
d1vmaa2	213	c.37.1.10 (A:82-294) GTPase domain of the signal r	2e-04
d1ls1a2	207	c.37.1.10 (A:89-295) GTPase domain of the signal s	4e-04
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	5e-04
d1rkba_	173	c.37.1.1 (A:) Adenylate kinase {Human (Homo sapien	6e-04
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	8e-04
d1np6a_	170	c.37.1.10 (A:) Molybdopterin-guanine dinucleotide	9e-04
d2bmfa2	305	c.37.1.14 (A:178-482) Dengue virus helicase {Dengu	0.001
d2i3ba1	189	c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57	0.001
d1xjca_	165	c.37.1.10 (A:) Molybdopterin-guanine dinucleotide	0.001
d1nksa_	194	c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobu	0.002
d1lw7a2	192	c.37.1.1 (A:220-411) Transcriptional regulator Nad	0.002
d1okkd2	207	c.37.1.10 (D:97-303) GTPase domain of the signal r	0.003
d1y63a_	174	c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishma	0.003
d2iyva1	165	c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycoba	0.004

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 224

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]

 Score =  170 bits (432), Expect = 1e-52
 Identities = 152/222 (68%), Positives = 189/222 (85%)

Query: 12  DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL 71
            +PWVEKYRP  + DIVGN + + RL  IA+DGNMP++I++G PG GKTTS+  LAHELL
Sbjct: 2   QLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL 61

Query: 72  GPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQAL 131
           G +Y + V+ELNASDDRGIDVVRN+IK FAQKK+ LPPGKHK+V+LDEADSMTAGAQQAL
Sbjct: 62  GRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQAL 121

Query: 132 RRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV 191
           RRTME+YSNSTRFA ACN S+KIIEP+QS+CAI+R+S+LSDE++L RL+ +++ E V Y 
Sbjct: 122 RRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVKYT 181

Query: 192 PEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVCD 233
            +GLEAIIFTA+GDMRQA+NNLQ+T +G   VN +NVFK+ D
Sbjct: 182 NDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVD 223

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 231

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]

 Score =  168 bits (426), Expect = 1e-51
 Identities = 119/220 (54%), Positives = 157/220 (71%), Gaps = 1/220 (0%)

Query: 12  DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL 71
           + PWVEKYRP ++ DIVG    V RL    + G+MP+L+ AGPPG GKTT+ LALA EL 
Sbjct: 11  EKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF 70

Query: 72  GPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQAL 131
           G N+R   +ELNASD+RGI+V+R K+K FA+ K  +     K++ LDEAD++T  AQQAL
Sbjct: 71  GENWRHNFLELNASDERGINVIREKVKEFARTK-PIGGASFKIIFLDEADALTQDAQQAL 129

Query: 132 RRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV 191
           RRTME++S++ RF L+CN SSKIIEPIQSRCAI RF  L DE+I  RL  + + E +   
Sbjct: 130 RRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELT 189

Query: 192 PEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKV 231
            EGL+AI++ A+GDMR+A+N LQA  +  + +  ENVF V
Sbjct: 190 EEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMV 229

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score =  155 bits (392), Expect = 2e-46
 Identities = 56/236 (23%), Positives = 97/236 (41%), Gaps = 24/236 (10%)

Query: 17  EKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY 75
            K+RP    D+VG    +  L      G + +  + +G  G GKT+    LA  L     
Sbjct: 4   RKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETG 63

Query: 76  REA-------------------VMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVV 116
             A                   ++E++A+    ++  R+ +            G+ KV +
Sbjct: 64  ITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPAR---GRFKVYL 120

Query: 117 LDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEIL 176
           +DE   ++  +  AL +T+E      +F LA     K+   I SRC       L  E+I 
Sbjct: 121 IDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIR 180

Query: 177 SRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNL-QATYSGFRFVNQENVFKV 231
            +L  ++ EE + + P  L+ +   A+G +R AL+   QA  SG   V+ + V  +
Sbjct: 181 HQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAM 236

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237

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]

 Score =  139 bits (350), Expect = 2e-40
 Identities = 94/222 (42%), Positives = 135/222 (60%), Gaps = 10/222 (4%)

Query: 14  PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP 73
           PWVEKYRP  + ++     AV  L    +  N+P+++  GPPGTGKT++ILAL  EL GP
Sbjct: 1   PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 60

Query: 74  NYRE-AVMELNASDDRGIDVVRNKIKMFAQKKV---------TLPPGKHKVVVLDEADSM 123
           +  +  ++ELNASD+RGI +VR K+K FA+  V           P   +K+++LDEADSM
Sbjct: 61  DLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM 120

Query: 124 TAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVV 183
           TA AQ ALRRTME YS  TRF L CN  ++II+P+ S+C+  RF  L     + RL  + 
Sbjct: 121 TADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFIS 180

Query: 184 QEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQ 225
           ++E V      LE I+  + GD+R+ +  LQ+   G +++  
Sbjct: 181 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGD 222

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 227

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]

 Score =  134 bits (338), Expect = 1e-38
 Identities = 92/217 (42%), Positives = 137/217 (63%), Gaps = 1/217 (0%)

Query: 12  DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL 71
           ++PWVEKYRP  + ++ G  + +  +     +G +P+L+  GPPGTGKT++I+ALA E+ 
Sbjct: 1   NLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY 60

Query: 72  GPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQAL 131
           G NY   V+ELNASDDRGIDVVRN+IK FA  +     G  K+++LDEAD+MT  AQ AL
Sbjct: 61  GKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKG-FKLIILDEADAMTNAAQNAL 119

Query: 132 RRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV 191
           RR +E Y+ +TRF +  N + K+   + S+C   RF  L  E I  R+  V+  EK+   
Sbjct: 120 RRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKLS 179

Query: 192 PEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENV 228
           P   +A+I  ++GDMR+ LN LQ+  +     +++ +
Sbjct: 180 PNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEI 216

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  112 bits (280), Expect = 6e-30
 Identities = 59/245 (24%), Positives = 97/245 (39%), Gaps = 25/245 (10%)

Query: 12  DIPWVEKYRPTKVCDIVGNLDAVARL-----------------GIIARDGNMPNLILAGP 54
           D  W  KY PT +  + GN  +V +L                       G     +L GP
Sbjct: 1   DKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGP 60

Query: 55  PGTGKTTSILALAHELLGPNYREAVM------ELNASDDRGIDVVRNKIKMFAQKKVTLP 108
           PG GKTT+   +A EL      +          LNA     +D +         ++    
Sbjct: 61  PGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNL 120

Query: 109 PGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKII--EPIQSRCAIVR 166
            GKH V+++DE D M+ G +  + +  +    ++   +       +    P    C  ++
Sbjct: 121 NGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLDIQ 180

Query: 167 FSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQE 226
           F R     I SRLM +   EK    P  ++ +I T  GD+RQ +N L    +  + +N E
Sbjct: 181 FRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTTTKTINHE 240

Query: 227 NVFKV 231
           N+ ++
Sbjct: 241 NINEI 245

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Length = 198

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]

 Score =  107 bits (268), Expect = 1e-28
 Identities = 29/191 (15%), Positives = 66/191 (34%), Gaps = 11/191 (5%)

Query: 32  DAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREA-VMELNA-SDDRG 89
           D +  L  I       ++++ G   +      L L   +     + + V+E++   ++ G
Sbjct: 1   DQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIG 60

Query: 90  IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACN 149
           ID +R                  K V++ + + MT  A  A  + +E         L   
Sbjct: 61  IDDIRTIKDFLNYSPEL---YTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTR 117

Query: 150 VSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEA------IIFTAD 203
               ++  I+SR   V  +   +   L +  +    E++P +    +       +     
Sbjct: 118 RWHYLLPTIKSRVFRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALEAYKLGAEKL 177

Query: 204 GDMRQALNNLQ 214
             + ++L  L+
Sbjct: 178 SGLMESLKVLE 188

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  104 bits (259), Expect = 6e-27
 Identities = 71/239 (29%), Positives = 115/239 (48%), Gaps = 35/239 (14%)

Query: 15  WVEKYRPTKVCDIVGNLDAVARL-GIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP 73
           WV+KYRP  +  +  N +    L  +  +  ++P+L+L GP GTGK T  +AL   + GP
Sbjct: 1   WVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGP 60

Query: 74  NYREAV------------------------MELNASDDRGID--VVRNKIKMFAQKK--- 104
                                         +E+  SD    D  V++  +K  AQ +   
Sbjct: 61  GVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVD 120

Query: 105 ----VTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQS 160
                     ++K V+++EA+S+T  AQ ALRRTME YS + R  + C+  S II PI+S
Sbjct: 121 FQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKS 180

Query: 161 RCAIVRFSRLSDEEILSRLMVVVQEEKVPYV-PEGLEAIIFTADGDMRQALNNLQATYS 218
           +C ++R    SD EI + L  VV  E++     + L+ I   ++G++R +L  L++   
Sbjct: 181 QCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMAL 239

>d1sxjb1 a.80.1.1 (B:231-322) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 92

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 96.1 bits (239), Expect = 1e-25
 Identities = 42/93 (45%), Positives = 57/93 (61%), Gaps = 5/93 (5%)

Query: 235 PHPLHVKNMVRNVLEGKFDDACSGLKQ-LYDLGYSPTDIITTLFRIIKNYEM-AEHLKLE 292
           PHPL VK M+   L    +D+   L+  L+  GYS  DI+TT FR+ KN     E ++LE
Sbjct: 1   PHPLIVKKML---LASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLE 57

Query: 293 FMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR 325
            +KE G  HMRI +GVG+YLQL  +LAK+  + 
Sbjct: 58  MIKEIGLTHMRILEGVGTYLQLASMLAKIHKLN 90

>d1sxjc1 a.80.1.1 (C:239-333) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 95

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 89.8 bits (223), Expect = 4e-23
 Identities = 18/94 (19%), Positives = 43/94 (45%), Gaps = 2/94 (2%)

Query: 235 PHPLHVKNMVRNVLEGKFDDACSGLKQL-YDLGYSPTDIITTLFRIIKNYEM-AEHLKLE 292
           P P  +K +++++LE  +  A   L ++    G +  D+I  + +I+++YE+  E  ++ 
Sbjct: 1   PRPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVH 60

Query: 293 FMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE 326
            + +       I  G    +Q   ++  +    E
Sbjct: 61  LLTKLADIEYSISKGGNDQIQGSAVIGAIKASFE 94

>d1iqpa1 a.80.1.1 (A:233-327) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 95

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score = 87.5 bits (217), Expect = 2e-22
 Identities = 21/94 (22%), Positives = 46/94 (48%), Gaps = 1/94 (1%)

Query: 234 QPHPLHVKNMVRNVLEGKFDDACSGLKQL-YDLGYSPTDIITTLFRIIKNYEMAEHLKLE 292
           +  P  ++ M+   L+G F  A   L+++    G S  D++  + + + N  + E  K+ 
Sbjct: 1   RARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVL 60

Query: 293 FMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRE 326
              + G  + R+ +G    +QL  LLA+ +++ +
Sbjct: 61  LADKIGEYNFRLVEGANEIIQLEALLAQFTLIGK 94

>d1sxjd1 a.80.1.1 (D:263-353) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 91

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 84.1 bits (208), Expect = 4e-21
 Identities = 19/84 (22%), Positives = 33/84 (39%), Gaps = 1/84 (1%)

Query: 240 VKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFR-IIKNYEMAEHLKLEFMKEAG 298
           +  +V  V  G FD+    +      G+S   ++  L    I N     + K +      
Sbjct: 6   LIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLF 65

Query: 299 FAHMRICDGVGSYLQLCGLLAKLS 322
               R+ +G   ++QL  LL K+S
Sbjct: 66  TTDSRLNNGTNEHIQLLNLLVKIS 89

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 86.2 bits (212), Expect = 2e-20
 Identities = 42/243 (17%), Positives = 77/243 (31%), Gaps = 42/243 (17%)

Query: 20  RPTKVCDIVGNLDAVARLGII-----ARDGNMPNLILAGPPGTGKTTSILALAHELLGPN 74
           RP  + + +G      +L +      AR   + +L+L GPPG GKTT             
Sbjct: 4   RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHV--------I 55

Query: 75  YREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRT 134
             E  + L  +    I+   +   + A         +  ++ +DE   ++  A++ L   
Sbjct: 56  AHELGVNLRVTSGPAIEKPGDLAAILANS-----LEEGDILFIDEIHRLSRQAEEHLYPA 110

Query: 135 MEIY----------------SNSTRFALACNVSSKIIEPIQSR---CAIVRFSRLSDEEI 175
           ME +                    RF L    +   +           +      + EE+
Sbjct: 111 MEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEEL 170

Query: 176 LSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ-----ATYSGFRFVNQENVFK 230
              +M   +   V    E    I   + G MR A    +     A  +G   + +E   +
Sbjct: 171 AQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITRERALE 230

Query: 231 VCD 233
              
Sbjct: 231 ALA 233

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

 Score = 82.3 bits (202), Expect = 5e-19
 Identities = 44/235 (18%), Positives = 80/235 (34%), Gaps = 25/235 (10%)

Query: 17  EKYRPTKVCDIVGNLDAVARLGI-----IARDGNMPNLILAGPPGTGKTTSILALAHELL 71
           +  RP  + + +G  +   +L +       R   + +++LAGPPG GKTT    +A EL 
Sbjct: 1   QFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ 60

Query: 72  GPNYREAVMELNASDD---------RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADS 122
              +  +   L    D         RG  +  ++I    +    L     +   +D    
Sbjct: 61  TNIHVTSGPVLVKQGDMAAILTSLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIG 120

Query: 123 MTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIV-RFSRLSDEEILSRLMV 181
               A     +++ I         A   S  +  P++SR  I+      + +E+   +  
Sbjct: 121 KGPSA-----KSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKR 175

Query: 182 VVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ-----ATYSGFRFVNQENVFKV 231
                 V       E I   + G  R A+   +      T      +N + V K 
Sbjct: 176 AASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKT 230

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score = 78.9 bits (194), Expect = 4e-17
 Identities = 24/182 (13%), Positives = 52/182 (28%), Gaps = 19/182 (10%)

Query: 47  PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVR----NKIKMFAQ 102
              +  GP  +GKTT   AL     G       + +N   DR    +       + +F  
Sbjct: 155 RYWLFKGPIDSGKTTLAAALLELCGGK-----ALNVNLPLDRLNFELGVAIDQFLVVFED 209

Query: 103 KKVTLPPGKHK--VVVLDEADSMTA------GAQQALRRTMEIYSNSTRFALACN-VSSK 153
            K T    +       ++  D++              +   +         +  N  S  
Sbjct: 210 VKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVP 269

Query: 154 IIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGL-EAIIFTADGDMRQALNN 212
                +    I    +   +  L R   ++++  +      L   I +    +  Q++ +
Sbjct: 270 KTLQARFVKQIDFRPKDYLKHCLERSEFLLEKRIIQSGIALLLMLIWYRPVAEFAQSIQS 329

Query: 213 LQ 214
             
Sbjct: 330 RI 331

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 207

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]

 Score = 75.5 bits (184), Expect = 8e-17
 Identities = 38/199 (19%), Positives = 70/199 (35%), Gaps = 25/199 (12%)

Query: 36  RLGIIARDGNMPN-LILAGPPGTGKTTSILALA-------------------HELLGPNY 75
           +L    + G   + L++   PG G    I AL+                    +L+    
Sbjct: 13  KLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGT 72

Query: 76  REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTM 135
                 L     +    V    ++  +       G  KVV + +A  +T  A  AL +T+
Sbjct: 73  HPDYYTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTL 132

Query: 136 EIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGL 195
           E     T F LA     +++  ++SRC +   +   ++  ++ L       +V    + L
Sbjct: 133 EEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWL-----SREVTMSQDAL 187

Query: 196 EAIIFTADGDMRQALNNLQ 214
            A +  + G    AL   Q
Sbjct: 188 LAALRLSAGSPGAALALFQ 206

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 49.0 bits (115), Expect = 2e-07
 Identities = 39/273 (14%), Positives = 74/273 (27%), Gaps = 58/273 (21%)

Query: 17  EKYRPTKVCDIVGNLDAVARLGIIARDGNMPN------LILAGPPGTGKTTSILALAHEL 70
           E Y P ++    G  +A+AR+ +                   G  G GKTT        +
Sbjct: 11  ENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV 70

Query: 71  ---------------------------LGPNYREAVMELNASDDRGIDVVRNKIKMFAQK 103
                                      L    R+    +       +D+++  +     +
Sbjct: 71  SEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVE 130

Query: 104 KVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSN------------STRFALACNVS 151
              L     +   +  +  + A     L R  E   +            ++       + 
Sbjct: 131 NHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMR 190

Query: 152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV--PEGLEAII------FTAD 203
            KI +        +        E+ + L    +      V  P  LE I          D
Sbjct: 191 EKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGD 250

Query: 204 GDMRQALNNLQ-----ATYSGFRFVNQENVFKV 231
           G  R+A+  L+     A   G   ++++ V K 
Sbjct: 251 GSARRAIVALKMACEMAEAMGRDSLSEDLVRKA 283

>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 = 46.9 bits (110), Expect = 2e-06
 Identities = 30/141 (21%), Positives = 55/141 (39%), Gaps = 5/141 (3%)

Query: 26  DIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS 85
            IVG  D    L + A D  +  +++ G  GTGK+T++ ALA  LL          +++ 
Sbjct: 8   AIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALA-ALLPEIEAVEGCPVSSP 66

Query: 86  DDRGIDVVRNKIKMFAQKK----VTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNS 141
           +   I      +     +K    V LP G  +  V+   D   A ++        + + +
Sbjct: 67  NVEMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARA 126

Query: 142 TRFALACNVSSKIIEPIQSRC 162
            R  L  +  + + + I    
Sbjct: 127 NRGYLYIDECNLLEDHIVDLL 147

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

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]

 Score = 44.4 bits (103), Expect = 8e-06
 Identities = 39/265 (14%), Positives = 78/265 (29%), Gaps = 44/265 (16%)

Query: 14  PWVEKYRPTKVC---DIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL 70
            +   Y P ++      +  LD +    +     + P   L G PGTGKT ++  L    
Sbjct: 8   VFSPSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY 67

Query: 71  LGPNYREAVMELNASDDRGIDVVR----------------NKIKMFAQKKVTLPPGKHKV 114
                   V            ++                     +    +       +  
Sbjct: 68  KDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMF 127

Query: 115 VVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQS---------RCAIV 165
           +VLD+A ++         R  +       F +A  +       + +            ++
Sbjct: 128 LVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVI 187

Query: 166 RFSRLSDEEILSRLMVVVQEEKVPYVPE-----------GLEAIIFTADGDMRQALNNLQ 214
           RFS  + ++I   L+   +                    G +  + T  GD R A++ L 
Sbjct: 188 RFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILY 247

Query: 215 -----ATYSGFRFVNQENVFKVCDQ 234
                A  +G + +  E+V K   +
Sbjct: 248 RSAYAAQQNGRKHIAPEDVRKSSKE 272

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]} Length = 211

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

 Score = 40.0 bits (93), Expect = 1e-04
 Identities = 16/79 (20%), Positives = 30/79 (37%), Gaps = 1/79 (1%)

Query: 43  DGNMPNLIL-AGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFA 101
           +G  P +IL  G  G GKTT+I  LA +         +   +      ++ ++   +   
Sbjct: 5   EGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNN 64

Query: 102 QKKVTLPPGKHKVVVLDEA 120
              +    G     V+ +A
Sbjct: 65  IPVIAQHTGADSASVIFDA 83

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]} Length = 213

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

 Score = 40.1 bits (93), Expect = 2e-04
 Identities = 15/73 (20%), Positives = 26/73 (35%), Gaps = 1/73 (1%)

Query: 45  NMPNLIL-AGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK 103
             P +I+  G  GTGKTTS   LA   +       +   +      I+ ++   +     
Sbjct: 9   EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGAT 68

Query: 104 KVTLPPGKHKVVV 116
            ++   G     V
Sbjct: 69  VISHSEGADPAAV 81

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

 Score = 38.5 bits (89), Expect = 4e-04
 Identities = 13/49 (26%), Positives = 20/49 (40%), Gaps = 1/49 (2%)

Query: 47 PNLIL-AGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVR 94
           NL    G  G+GKTT+   LA    G   R  ++  +       + +R
Sbjct: 10 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLR 58

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 39.0 bits (90), Expect = 5e-04
 Identities = 42/209 (20%), Positives = 68/209 (32%), Gaps = 19/209 (9%)

Query: 23  KVCDIVGNLDAVARLGIIARDGNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVME 81
            V   + N     +L    R    P N+++ GP G GKT     LA     P  +    +
Sbjct: 25  AVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATK 84

Query: 82  LNASDDRGIDVVRNKIKMFAQ-KKVTLPPGKHKVVVLDE------------ADSMTAGAQ 128
                  G +V      +            ++ +V +DE            AD    G Q
Sbjct: 85  FTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQ 144

Query: 129 QALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKV 188
           + L   +E  + ST+  +    +  I+        + R S L   E+  RL + V  E  
Sbjct: 145 RDLLPLVEGSTVSTKHGMV--KTDHILFIASGAFQVARPSDL-IPELQGRLPIRV--ELT 199

Query: 189 PYVPEGLEAIIFTADGDMRQALNNLQATY 217
                  E I+      + +    L AT 
Sbjct: 200 ALSAADFERILTEPHASLTEQYKALMATE 228

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

 Score = 38.0 bits (87), Expect = 6e-04
 Identities = 12/25 (48%), Positives = 16/25 (64%)

Query: 46 MPNLILAGPPGTGKTTSILALAHEL 70
          +PN++L G PG GKTT    LA + 
Sbjct: 4  LPNILLTGTPGVGKTTLGKELASKS 28

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

 Score = 38.4 bits (88), Expect = 8e-04
 Identities = 23/200 (11%), Positives = 58/200 (29%), Gaps = 18/200 (9%)

Query: 32  DAVARLGIIARDGNMPNLI-LAGPPGTGKTTSILALAHELL-------GPNYREAVM--- 80
           D +  L    +    P    L G PG+GKT+   A+  E            +++      
Sbjct: 17  DNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQHPNFD 76

Query: 81  -ELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS 139
             +   +   +  V        +  ++    +   +V++     T    Q          
Sbjct: 77  ELVKLYEKDVVKHVTPYSNRMTEAIISRLSDQGYNLVIEGTGRTTDVPIQTATMLQAKGY 136

Query: 140 NSTRFALACNVSSKIIEPIQSRC-----AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEG 194
            +  + +A             R           +R + ++    ++  +          G
Sbjct: 137 ETKMYVMAVP-KINSYLGTIERYETMYADDPMTARATPKQAHDIVVKNLPTNLETLHKTG 195

Query: 195 LEAIIFTADGDMRQALNNLQ 214
           L + I   + +  +  ++L+
Sbjct: 196 LFSDIRLYNREGVKLYSSLE 215

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

 Score = 37.3 bits (85), Expect = 9e-04
 Identities = 12/36 (33%), Positives = 17/36 (47%)

Query: 46 MPNLILAGPPGTGKTTSILALAHELLGPNYREAVME 81
          +P L  A   GTGKTT +  L   L     R  +++
Sbjct: 2  IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK 37

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]} Length = 305

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

 Score = 38.0 bits (87), Expect = 0.001
 Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 1/35 (2%)

Query: 48 NLILAGPPGTGKTTSIL-ALAHELLGPNYREAVME 81
            I+   PG GKT   L A+  E +    R  ++ 
Sbjct: 11 LTIMDLHPGAGKTKRYLPAIVREAIKRGLRTLILA 45

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]} Length = 189

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.3 bits (85), Expect = 0.001
 Identities = 11/33 (33%), Positives = 14/33 (42%)

Query: 48 NLILAGPPGTGKTTSILALAHELLGPNYREAVM 80
          ++ L GPPG GKTT I   +  L          
Sbjct: 3  HVFLTGPPGVGKTTLIHKASEVLKSSGVPVDGF 35

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

 Score = 36.7 bits (84), Expect = 0.001
 Identities = 7/46 (15%), Positives = 15/46 (32%)

Query: 46 MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID 91
          M    + G   +GKTT +       +   +R   ++ +        
Sbjct: 1  MNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGGEPAR 46

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

 Score = 36.5 bits (83), Expect = 0.002
 Identities = 24/174 (13%), Positives = 50/174 (28%), Gaps = 5/174 (2%)

Query: 46  MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKV 105
           M   I+ G PG GK+T +  +   L           +N  D      ++        +  
Sbjct: 1   MKIGIVTGIPGVGKSTVLAKVKEILDNQGIN--NKIINYGDFMLATALKLGYAKDRDEMR 58

Query: 106 TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIV 165
            L   K K + +D A  +   A+      + I ++        +     +          
Sbjct: 59  KLSVEKQKKLQIDAAKGIAEEARAGGEGYLFIDTH--AVIRTPSGYLPGLPSYVITEINP 116

Query: 166 RFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSG 219
               L + +    L    ++          E++I     +  +      A  +G
Sbjct: 117 SVIFLLEADPKIILSRQKRDTTRNRNDYSDESVIL-ETINFARYAATASAVLAG 169

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]} Length = 192

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

 Score = 36.6 bits (83), Expect = 0.002
 Identities = 10/62 (16%), Positives = 17/62 (27%)

Query: 41  ARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF 100
           AR      + + G   +GK+  +  LA      +  E   E       G +         
Sbjct: 2   ARPFFAKTVAILGGESSGKSVLVNKLAAVFNTTSAWEYGREFVFEKLGGDEQAMQYSDYP 61

Query: 101 AQ 102
             
Sbjct: 62  QM 63

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

 Score = 36.2 bits (83), Expect = 0.003
 Identities = 11/55 (20%), Positives = 17/55 (30%), Gaps = 1/55 (1%)

Query: 47  PNLIL-AGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF 100
             ++L  G  G GKTT+I  L         +      +     G   +    K  
Sbjct: 6   GRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRL 60

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

 Score = 35.8 bits (81), Expect = 0.003
 Identities = 12/28 (42%), Positives = 18/28 (64%)

Query: 48 NLILAGPPGTGKTTSILALAHELLGPNY 75
          N+++ G PGTGKT+    +A EL G  +
Sbjct: 7  NILITGTPGTGKTSMAEMIAAELDGFQH 34

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

 Score = 35.4 bits (80), Expect = 0.004
 Identities = 11/24 (45%), Positives = 14/24 (58%)

Query: 47 PNLILAGPPGTGKTTSILALAHEL 70
          P  +L G PG+GK+T    LA  L
Sbjct: 2  PKAVLVGLPGSGKSTIGRRLAKAL 25

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	331
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	100.0
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	100.0
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	100.0
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	100.0
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	100.0
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	100.0
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.98
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.97
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.97
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.96
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.93
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	99.86
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.86
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.82
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.77
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.75
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.73
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.72
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.72
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.65
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.61
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.6
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.58
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.57
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.53
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.52
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.51
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.51
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.24
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.2
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.11
d1iqpa1	95	Replication factor C {Archaeon Pyrococcus furiosus	99.09
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.05
d1sxjc1	95	Replication factor C3 {Baker's yeast (Saccharomyce	98.97
d1sxjd1	91	Replication factor C2 {Baker's yeast (Saccharomyce	98.96
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.88
d1sxjb1	92	Replication factor C4 {Baker's yeast (Saccharomyce	98.82
d1jqlb_	140	delta subunit of DNA polymerase III, N-domain {Esc	98.59
d1tuea_	205	Replication protein E1 helicase domain {Human papi	98.39
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.35
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.24
d1jr3d1	127	delta subunit {Escherichia coli [TaxId: 562]}	98.07
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.0
d1jr3a1	126	gamma subunit {Escherichia coli [TaxId: 562]}	97.95
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.92
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.91
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.91
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.9
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.89
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	97.86
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.85
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.83
d1okkd2	207	GTPase domain of the signal recognition particle r	97.8
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.76
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.74
d1sxje1	99	Replication factor C5 {Baker's yeast (Saccharomyce	97.71
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	97.69
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.69
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.68
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.66
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.66
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.59
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.58
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.57
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.52
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.46
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.41
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.4
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.38
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.38
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.37
d3ctda1	163	Uncharacterized protein YrvN {Prochlorococcus mari	97.36
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.29
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.29
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.28
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.28
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	97.26
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.24
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.24
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.16
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.15
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	97.1
d3bgea1	184	Uncharacterized protein NTHI1458 {Haemophilus infl	97.1
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	97.09
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.08
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.08
d2qw6a1	88	Uncharacterized protein EfaeDRAFT_0938 {Enterococc	97.08
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.08
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.07
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	97.05
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	97.04
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.02
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.02
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	96.97
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	96.96
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.96
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.93
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.93
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.9
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	96.82
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.8
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.8
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	96.77
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.74
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.74
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.72
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.72
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.69
d2r9ga1	186	Uncharacterized protein EfaeDRAFT_0938 {Enterococc	96.68
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.66
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.65
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.64
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	96.64
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.62
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.62
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.59
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.58
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.56
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.55
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	96.47
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.39
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.36
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	96.35
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.34
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.34
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.31
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.3
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.28
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.27
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.25
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.25
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.24
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.22
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.22
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.21
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.18
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.18
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.17
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.14
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	96.08
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.07
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.05
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.04
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.02
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.99
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.96
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.93
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	95.9
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.89
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	95.89
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.87
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	95.84
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.84
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.82
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.77
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.76
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.73
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.71
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.7
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	95.7
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.63
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.6
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.6
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.57
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.51
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.51
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.5
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.48
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.45
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	95.42
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.39
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.37
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.36
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.35
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.33
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.29
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	95.29
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	95.24
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	95.23
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.21
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	95.19
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	95.19
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.19
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.18
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	95.15
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.14
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.1
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.09
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.07
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.04
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.02
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.89
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	94.76
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.76
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.73
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.66
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.57
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	94.56
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.5
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.44
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.35
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.35
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.29
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.28
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.24
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.21
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.17
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.1
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.04
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.79
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.79
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.74
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.73
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.72
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	93.69
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.59
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.43
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	93.43
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.39
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.34
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.32
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.29
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	93.17
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	92.94
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.91
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	92.91
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.9
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.77
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.74
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	92.67
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.62
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.49
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.38
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.37
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	92.29
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.23
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	92.21
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.12
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.09
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	91.92
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	91.89
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.59
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	91.5
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.44
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	91.33
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.33
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.27
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	91.26
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	91.02
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.01
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	90.98
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	90.94
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.86
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	90.84
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	90.84
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.74
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	90.72
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	90.62
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	90.55
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	90.15
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	90.1
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	90.07
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	89.86
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	89.83
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.75
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	89.74
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.73
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.6
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.59
d1xpua3	289	Transcription termination factor Rho, ATPase domai	89.18
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	89.15
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	89.08
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	89.01
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	88.86
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	88.44
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	87.73
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	87.58
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	87.51
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	87.3
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	87.2
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	87.08
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	87.06
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	86.8
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	86.53
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	86.37
d1z3ix2	298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	85.7
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	85.45
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	84.71
d1a5ta1	123	delta prime subunit {Escherichia coli [TaxId: 562]	84.3
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	83.73
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	83.45
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	82.68
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	80.29
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	80.09

>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=100.00  E-value=1.3e-43  Score=297.07  Aligned_cols=222  Identities=68%  Similarity=1.093  Sum_probs=207.8

Q ss_pred             CCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCCh
Q 020071           11 YDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGI   90 (331)
Q Consensus        11 ~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~   90 (331)
                      |++||++||||++|+|++||++.++.|..+++++..||++||||+|+|||++|+.+++++.++.....++++++.+..+.
T Consensus         1 ~~~pw~eKyrP~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~   80 (224)
T d1sxjb2           1 LQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGI   80 (224)
T ss_dssp             CCCCHHHHTCCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSH
T ss_pred             CCCchHhHhCCCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCc
Confidence            78999999999999999999999999999999999999999999999999999999999987766678899999999898


Q ss_pred             HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCC
Q 020071           91 DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRL  170 (331)
Q Consensus        91 ~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~  170 (331)
                      ..+...+..+............+++|+||+|.++...+++|+..+++++..+++++++++..++.++++|||..+.|.|+
T Consensus        81 ~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~  160 (224)
T d1sxjb2          81 DVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKL  160 (224)
T ss_dssp             HHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             eehhhHHHHHHHhhccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhccc
Confidence            88888888888777666667889999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhhc
Q 020071          171 SDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKVC  232 (331)
Q Consensus       171 ~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~~  232 (331)
                      +.+++..++..+++++++.+++++++.+++.++||+|.+++.||.+..+.+.|+.+.|.+++
T Consensus       161 ~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s~Gd~R~ai~~Lq~~~~~~~~i~~~~i~~~~  222 (224)
T d1sxjb2         161 SDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIV  222 (224)
T ss_dssp             CHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCHHHHHHHHHHHHHHHSSBCHHHHHHHH
T ss_pred             chhhhHHHHHHHHHhcccCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCcCHHHHHHHh
Confidence            99999999999999999999999999999999999999999999887777788888777654

>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=100.00  E-value=1.7e-40  Score=278.67  Aligned_cols=221  Identities=42%  Similarity=0.727  Sum_probs=197.9

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChH
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGID   91 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~   91 (331)
                      ++||++||||++|+|++||+++++.|+.+++++..||+|||||+|+|||++|+.+++++.+..+...+.+++..+..+.+
T Consensus         1 ~~pw~ekyrP~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~   80 (227)
T d1sxjc2           1 NLPWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGID   80 (227)
T ss_dssp             CCCHHHHTCCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHH
T ss_pred             CCchhhhhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCee
Confidence            47999999999999999999999999999999999999999999999999999999999877766778888988887777


Q ss_pred             hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCC
Q 020071           92 VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLS  171 (331)
Q Consensus        92 ~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~  171 (331)
                      .............. ....+++++||||+|.++...+++|++.+++++.+++++++++...++.+++++||..+.|.|++
T Consensus        81 ~~~~~~~~~~~~~~-~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~  159 (227)
T d1sxjc2          81 VVRNQIKDFASTRQ-IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLP  159 (227)
T ss_dssp             HHHTHHHHHHHBCC-SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCC
T ss_pred             eeecchhhcccccc-ccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcccccc
Confidence            66665555444332 22456789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-----hCCCccchhhhhhhcC
Q 020071          172 DEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-----SGFRFVNQENVFKVCD  233 (331)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-----~~~~~i~~~~v~~~~~  233 (331)
                      .+++..++.+++..+++.+++++++.|++.++||+|.+++.||.+.     .+...||.++|.++++
T Consensus       160 ~~~i~~~l~~I~~~e~i~i~~~~l~~i~~~s~Gd~R~ain~Lq~~~~~~~~~~~~~It~~~v~e~~g  226 (227)
T d1sxjc2         160 QEAIERRIANVLVHEKLKLSPNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCG  226 (227)
T ss_dssp             HHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTTCHHHHHHHTTTTTTTTCSSSCCCBCHHHHHHHTT
T ss_pred             ccccccccccccccccccCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCCCCCeeCHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999764     2346788888888765

>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=100.00  E-value=3.7e-40  Score=278.28  Aligned_cols=216  Identities=25%  Similarity=0.341  Sum_probs=195.9

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC------------------
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY------------------   75 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~------------------   75 (331)
                      +++||||++|+|++||++.++.|..++.+++.|| +|||||+|+|||++|+.+++.+.+...                  
T Consensus         2 ~~~KyrP~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~   81 (239)
T d1njfa_           2 LARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQG   81 (239)
T ss_dssp             HHHHTCCSSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHT
T ss_pred             chhhhCCCCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcC
Confidence            6899999999999999999999999999999999 899999999999999999999876431                  


Q ss_pred             -CCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCC
Q 020071           76 -REAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKI  154 (331)
Q Consensus        76 -~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l  154 (331)
                       ..++++++..+..+++.+++.++.+...+.   .++++++||||+|.|+.+++++|+++||+|+.+++||++|++..++
T Consensus        82 ~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~---~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i  158 (239)
T d1njfa_          82 RFVDLIEIDAASRTKVEDTRDLLDNVQYAPA---RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL  158 (239)
T ss_dssp             CCTTEEEEETTCSSSHHHHHHHHHSCCCSCS---SSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGS
T ss_pred             CCCeEEEecchhcCCHHHHHHHHHHHHhccc---cCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCcccc
Confidence             124678888877788888888777665554   6778999999999999999999999999999999999999999999


Q ss_pred             ChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH-hhCCCccchhhhhhhcC
Q 020071          155 IEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT-YSGFRFVNQENVFKVCD  233 (331)
Q Consensus       155 ~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~-~~~~~~i~~~~v~~~~~  233 (331)
                      .++++|||..+.|++++.+++..++..++..++..+++++++.|++.++||+|.+++.++.+ +.+.+.|+.++|.++++
T Consensus       159 ~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s~Gd~R~ain~l~~~~~~~~~~I~~~~v~~~lg  238 (239)
T d1njfa_         159 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLG  238 (239)
T ss_dssp             CHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHTTTCHHHHHHHHHHHHHHTTTSBCHHHHHHHHT
T ss_pred             ChhHhhhhcccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999999999865 45677899999988764

>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=100.00  E-value=7.5e-40  Score=275.42  Aligned_cols=224  Identities=53%  Similarity=0.846  Sum_probs=201.4

Q ss_pred             CCCCCCCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071            7 SSSAYDIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus         7 ~~~~~~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      ....+..||++||+|++|+|++||++.++.|..++++++.||++|+||+|+|||++|+.+++++.++....+++++++++
T Consensus         6 ~~~~~~~~w~~ky~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~   85 (231)
T d1iqpa2           6 EVKVLEKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD   85 (231)
T ss_dssp             HHHHTTSCHHHHTCCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTC
T ss_pred             hhhhhhchHHHHhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCc
Confidence            34557789999999999999999999999999999999999999999999999999999999998877778899999988


Q ss_pred             CCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceee
Q 020071           87 DRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVR  166 (331)
Q Consensus        87 ~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~  166 (331)
                      ..+.+.+++........... .....+++++||+|.++...+++|+++++++..++.+|++++...++.+++++||..+.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~-~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~  164 (231)
T d1iqpa2          86 ERGINVIREKVKEFARTKPI-GGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFR  164 (231)
T ss_dssp             HHHHHTTHHHHHHHHHSCCG-GGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEE
T ss_pred             ccchhHHHHHHHHHHhhhhc-cCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCcccccc
Confidence            76666666665555443321 13467899999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCccchhhhhhh
Q 020071          167 FSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFVNQENVFKV  231 (331)
Q Consensus       167 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i~~~~v~~~  231 (331)
                      |.|++..++..+++..++++++.+++++++.|++.++||+|.+++.|+.+....+.++.++|..+
T Consensus       165 ~~~~~~~~~~~~l~~~~~~e~i~i~~~~l~~I~~~~~gdiR~ai~~Lq~~~~~~~~it~e~v~~v  229 (231)
T d1iqpa2         165 FRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAINILQAAAALDKKITDENVFMV  229 (231)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSEECHHHHHHH
T ss_pred             ccccchhhHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCcCHHHHHhh
Confidence            99999999999999999999999999999999999999999999999998877888998888765

>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=100.00  E-value=5.2e-37  Score=258.89  Aligned_cols=220  Identities=43%  Similarity=0.718  Sum_probs=189.6

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-CCCceEEeecCCCCChHh
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-YREAVMELNASDDRGIDV   92 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~   92 (331)
                      ||++||||++|+|++||++.++.|+.+++++..||++|+||+|+|||++++.+++.+.+.. ......+++.....+...
T Consensus         1 ~w~~ky~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~   80 (237)
T d1sxjd2           1 PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISI   80 (237)
T ss_dssp             CHHHHTCCSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHH
T ss_pred             CcchhhCCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchH
Confidence            8999999999999999999999999999999999999999999999999999999975432 234567777777766665


Q ss_pred             HHHHHHHHHhcccC---------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccc
Q 020071           93 VRNKIKMFAQKKVT---------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCA  163 (331)
Q Consensus        93 i~~~i~~~~~~~~~---------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~  163 (331)
                      ....+.........         .....++++||||+|.++...++.+++.++.++.++.+|++++...++++++++||.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~  160 (237)
T d1sxjd2          81 VREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  160 (237)
T ss_dssp             HTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             HHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhh
Confidence            55555544332211         113467899999999999999999999999999999999999999999999999999


Q ss_pred             eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh------hCCCccchhhhhhhcC
Q 020071          164 IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY------SGFRFVNQENVFKVCD  233 (331)
Q Consensus       164 ~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~------~~~~~i~~~~v~~~~~  233 (331)
                      .+.|.|++.+++..+|..++.++++.+++++++.|++.++||+|.+++.|+.++      ...+.||.++|+++.+
T Consensus       161 ~i~f~~~~~~~~~~~L~~i~~~e~i~i~~~~l~~ia~~s~gd~R~ai~~L~~~~~~~~~~~~~~~It~~~i~e~~g  236 (237)
T d1sxjd2         161 KFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAG  236 (237)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSCHHHHHHHHHHTHHHHHHHCSCCCCCHHHHHHHHT
T ss_pred             hhccccccccccchhhhhhhhhhcCcCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhcCCCCccCHHHHHHhhC
Confidence            999999999999999999999999999999999999999999999999998653      3445688888887654

>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=100.00  E-value=1e-32  Score=234.55  Aligned_cols=204  Identities=34%  Similarity=0.526  Sum_probs=161.7

Q ss_pred             hhhhcCCCCCCccccCHHHHHHHHHHHHcCC-CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCC----------------
Q 020071           15 WVEKYRPTKVCDIVGNLDAVARLGIIARDGN-MPNLILAGPPGTGKTTSILALAHELLGPNYRE----------------   77 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~----------------   77 (331)
                      |+|||||++|+|++|++++.+.|..++.++. .|+++||||+|+|||++|+++++.+.+.....                
T Consensus         1 W~eky~P~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~   80 (252)
T d1sxje2           1 WVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKL   80 (252)
T ss_dssp             CTTTTCCCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC----------------
T ss_pred             CCcccCCCCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchh
Confidence            9999999999999999999999999998775 55699999999999999999999986432111                


Q ss_pred             --------ceEEeecCCC--CChHhHHHHHHHHHhccc-------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcC
Q 020071           78 --------AVMELNASDD--RGIDVVRNKIKMFAQKKV-------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSN  140 (331)
Q Consensus        78 --------~~~~~~~~~~--~~~~~i~~~i~~~~~~~~-------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~  140 (331)
                              ....+...+.  .......+.+........       ....+..++++|||+|.++...++.|++.+++++.
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~  160 (252)
T d1sxje2          81 ELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSK  160 (252)
T ss_dssp             --CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTT
T ss_pred             hhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccc
Confidence                    0111111111  111122233322221110       01134578999999999999999999999999999


Q ss_pred             CcEEEEeeCCCCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHhcCCCHHHHHHHHHHHhh
Q 020071          141 STRFALACNVSSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYV-PEGLEAIIFTADGDMRQALNNLQATYS  218 (331)
Q Consensus       141 ~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~-~~~~~~l~~~~~g~~r~~~~~l~~~~~  218 (331)
                      +++||++|++.++++++++|||..++|+|++.+++.+++..++.++++.++ +++++.|+..++||+|.+++.||.++.
T Consensus       161 ~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~i~~~s~Gd~R~ai~~Lq~~~~  239 (252)
T d1sxje2         161 NIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMAL  239 (252)
T ss_dssp             TEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHHHHHHHTHHHH
T ss_pred             cccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999998775 678899999999999999999997753

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.98  E-value=9.6e-32  Score=220.83  Aligned_cols=178  Identities=24%  Similarity=0.287  Sum_probs=153.9

Q ss_pred             cCHHHHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC-------------------CCceEEeecCC--
Q 020071           29 GNLDAVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNY-------------------REAVMELNASD--   86 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~-------------------~~~~~~~~~~~--   86 (331)
                      +|++..+.|.+.+.+++.|| +||+||+|+|||++|+.+++.+.|...                   ...+..+...+  
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~   85 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGK   85 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTC
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcc
Confidence            34449999999999999999 899999999999999999999987532                   22344443322  


Q ss_pred             -CCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhccccee
Q 020071           87 -DRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIV  165 (331)
Q Consensus        87 -~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i  165 (331)
                       ....+++++.++.+...+.   .++++++||||+|.++.+++++|+++||+|+.++.||++|++.+++.++|+|||+.+
T Consensus        86 ~~i~~~~ir~l~~~~~~~~~---~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i  162 (207)
T d1a5ta2          86 NTLGVDAVREVTEKLNEHAR---LGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLH  162 (207)
T ss_dssp             SSBCHHHHHHHHHHTTSCCT---TSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             cccccchhhHHhhhhhhccc---cCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEE
Confidence             3457788888877666654   678999999999999999999999999999999999999999999999999999999


Q ss_pred             eecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHH
Q 020071          166 RFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQ  214 (331)
Q Consensus       166 ~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~  214 (331)
                      .|.|++.+++..+|.+     +..++++++..+++.++||+|.|++.+|
T Consensus       163 ~~~~~~~~~~~~~L~~-----~~~~~~~~~~~i~~~s~Gs~r~al~~le  206 (207)
T d1a5ta2         163 YLAPPPEQYAVTWLSR-----EVTMSQDALLAALRLSAGSPGAALALFQ  206 (207)
T ss_dssp             ECCCCCHHHHHHHHHH-----HCCCCHHHHHHHHHHTTTCHHHHHHTTS
T ss_pred             ecCCCCHHHHHHHHHH-----cCCCCHHHHHHHHHHcCCCHHHHHHHhC
Confidence            9999999999999965     4468999999999999999999998764

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.97  E-value=3.6e-31  Score=225.02  Aligned_cols=212  Identities=31%  Similarity=0.486  Sum_probs=170.7

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHc-----------------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARD-----------------GNMPNLILAGPPGTGKTTSILALAHELLGPNYR   76 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~-----------------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~   76 (331)
                      .|++||||++|+|++|+++.++.|..++..                 +..++++||||||+|||++|+++++.+     +
T Consensus         3 lW~eky~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----~   77 (253)
T d1sxja2           3 LWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----G   77 (253)
T ss_dssp             CHHHHTCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----T
T ss_pred             ccccCcCCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----H
Confidence            599999999999999999999999998864                 344569999999999999999999998     6


Q ss_pred             CceEEeecCCCCChHhHHHHHHHHHhccc-----------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-cCCcEE
Q 020071           77 EAVMELNASDDRGIDVVRNKIKMFAQKKV-----------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-SNSTRF  144 (331)
Q Consensus        77 ~~~~~~~~~~~~~~~~i~~~i~~~~~~~~-----------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-~~~~~~  144 (331)
                      .+++.++.++..+...++..+........           ....+...++++||++.++...+..+...++.. .....+
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~~~i  157 (253)
T d1sxja2          78 YDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPL  157 (253)
T ss_dssp             CEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCSSCE
T ss_pred             hhhhccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhccccccc
Confidence            67888888877666555554433222110           112346789999999999887777666666532 234456


Q ss_pred             EEeeCC-CCCCChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHhhCCCcc
Q 020071          145 ALACNV-SSKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATYSGFRFV  223 (331)
Q Consensus       145 I~~~~~-~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~~~~~~i  223 (331)
                      +++++. .....+.+++||..+.|.+|+.+++..+++.++.++++.+++++++.|++.++||+|.+++.|+.+....+.+
T Consensus       158 i~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~~l~~i~~~s~GDiR~ai~~L~~~~~~~~~i  237 (253)
T d1sxja2         158 ILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTTTKTI  237 (253)
T ss_dssp             EEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTCHHHHHHHHTHHHHHSSCC
T ss_pred             ccccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCC
Confidence            666654 4456778999999999999999999999999999999999999999999999999999999999887777778


Q ss_pred             chhhhhh
Q 020071          224 NQENVFK  230 (331)
Q Consensus       224 ~~~~v~~  230 (331)
                      +.+++.+
T Consensus       238 ~~~~~~~  244 (253)
T d1sxja2         238 NHENINE  244 (253)
T ss_dssp             CTTHHHH
T ss_pred             CHHHHHH
Confidence            8776654

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.97  E-value=1.5e-28  Score=206.80  Aligned_cols=198  Identities=19%  Similarity=0.243  Sum_probs=167.2

Q ss_pred             cCCCCCCccccCHHHHHHHHHHHHc-----CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH
Q 020071           19 YRPTKVCDIVGNLDAVARLGIIARD-----GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV   93 (331)
Q Consensus        19 ~~p~~~~~~ig~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i   93 (331)
                      .||++|+|++||+++++.|..++..     ...||+|||||||+|||++|+.+++++     +.++..+++.+......+
T Consensus         3 ~RP~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~-----~~~~~~~~~~~~~~~~~~   77 (238)
T d1in4a2           3 LRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL-----QTNIHVTSGPVLVKQGDM   77 (238)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH-----TCCEEEEETTTCCSHHHH
T ss_pred             CCCCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc-----CCCcccccCcccccHHHH
Confidence            5999999999999999999888753     346789999999999999999999999     667888888887666655


Q ss_pred             HHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh------------------cCCcEEEEeeCCCCCCC
Q 020071           94 RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY------------------SNSTRFALACNVSSKII  155 (331)
Q Consensus        94 ~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~------------------~~~~~~I~~~~~~~~l~  155 (331)
                      ...+..         ..++.++++||++.+.+..++.++..++..                  ...+++|++|++...+.
T Consensus        78 ~~~~~~---------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~  148 (238)
T d1in4a2          78 AAILTS---------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLS  148 (238)
T ss_dssp             HHHHHH---------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSC
T ss_pred             HHHHHh---------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCcccc
Confidence            554432         345679999999999999999998888742                  34678999999999999


Q ss_pred             hhhhcccce-eeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-----hCCCccchhhhh
Q 020071          156 EPIQSRCAI-VRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-----SGFRFVNQENVF  229 (331)
Q Consensus       156 ~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-----~~~~~i~~~~v~  229 (331)
                      +++++||.. +.|++++.+++..+++.++..++..+++++++.+++.++||+|.+++.++.+.     .+...||.+.+.
T Consensus       149 ~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~s~gd~R~ai~~l~~~~~~~~~~~~~~it~~~~~  228 (238)
T d1in4a2         149 SPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTDIVL  228 (238)
T ss_dssp             HHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHH
T ss_pred             ccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhcCCccCHHHHH
Confidence            999999865 69999999999999999999999999999999999999999999999998642     344567766555


Q ss_pred             h
Q 020071          230 K  230 (331)
Q Consensus       230 ~  230 (331)
                      +
T Consensus       229 ~  229 (238)
T d1in4a2         229 K  229 (238)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=99.96  E-value=8.8e-28  Score=202.15  Aligned_cols=199  Identities=19%  Similarity=0.210  Sum_probs=164.0

Q ss_pred             cCCCCCCccccCHHHHHHHHHHHHc-----CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH
Q 020071           19 YRPTKVCDIVGNLDAVARLGIIARD-----GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV   93 (331)
Q Consensus        19 ~~p~~~~~~ig~~~~~~~l~~~l~~-----~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i   93 (331)
                      .||++|+|++||+++++.|..++..     ...+|+|||||||+|||++|+.+++.+     ..++..+++.........
T Consensus         3 ~RP~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~-----~~~~~~~~~~~~~~~~~~   77 (239)
T d1ixsb2           3 LRPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL-----GVNLRVTSGPAIEKPGDL   77 (239)
T ss_dssp             CCCCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH-----TCCEEEEETTTCCSHHHH
T ss_pred             cCCCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh-----CCCeEeccCCccccchhh
Confidence            3899999999999999999988864     346779999999999999999999998     677888888776554444


Q ss_pred             HHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh------------------cCCcEEEEeeCCCC-CC
Q 020071           94 RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY------------------SNSTRFALACNVSS-KI  154 (331)
Q Consensus        94 ~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~------------------~~~~~~I~~~~~~~-~l  154 (331)
                      ...+..    .    .....++++||+|.++...++.++..+++.                  ++++++|++|++.. ..
T Consensus        78 ~~~~~~----~----~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~  149 (239)
T d1ixsb2          78 AAILAN----S----LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLIT  149 (239)
T ss_dssp             HHHHHT----T----CCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCS
T ss_pred             HHHHHh----h----ccCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCccccc
Confidence            433321    1    345679999999999999999999999852                  34567888887765 45


Q ss_pred             ChhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHh-----hCCCccchhhhh
Q 020071          155 IEPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQATY-----SGFRFVNQENVF  229 (331)
Q Consensus       155 ~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~~-----~~~~~i~~~~v~  229 (331)
                      .+.++++|..+.|.+++.+++..++...+..+++.++++.+..+++.++||+|.+++.++.+.     .+...||.+.+.
T Consensus       150 ~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s~gd~R~a~~~l~~~~~~a~~~~~~~It~~~~~  229 (239)
T d1ixsb2         150 APLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRGTMRVAKRLFRRVRDFAQVAGEEVITRERAL  229 (239)
T ss_dssp             CGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHTTSSHHHHHHHHHHHHHHHTTSCCSCBCHHHHH
T ss_pred             chhhcccceeeEeeccChhhhhHHHHHHHHHhCCccchHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHH
Confidence            577778899999999999999999999999999999999999999999999999999998653     344567776665


Q ss_pred             h
Q 020071          230 K  230 (331)
Q Consensus       230 ~  230 (331)
                      +
T Consensus       230 ~  230 (239)
T d1ixsb2         230 E  230 (239)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.93  E-value=8.8e-26  Score=183.01  Aligned_cols=137  Identities=17%  Similarity=0.165  Sum_probs=121.1

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCC-CCCCceEEeecCC-CCChHhHHHHHHHHHhcccCCCCC
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP-NYREAVMELNASD-DRGIDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~-~~~~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      .++.+.++++++..++++|+||+|+|||++|..+++.+... ..+.+++.+++.. .++++++++..+.+...+.   .+
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~---~~   78 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPE---LY   78 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCS---SS
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcc---cC
Confidence            46788999999998889999999999999999999987543 3346788887643 4689999998888877775   68


Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccceeeecCCCH
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIVRFSRLSD  172 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i~~~~~~~  172 (331)
                      +++|+||||+|.|+.+++|+|+++||+||.+++||++|+++.++++|++|||+.+.|+++.+
T Consensus        79 ~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p~~  140 (198)
T d2gnoa2          79 TRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPKE  140 (198)
T ss_dssp             SSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCHH
T ss_pred             CCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCchH
Confidence            89999999999999999999999999999999999999999999999999999999987753

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=99.86  E-value=3.3e-21  Score=161.20  Aligned_cols=198  Identities=20%  Similarity=0.225  Sum_probs=138.1

Q ss_pred             CCCCccccCHHHHHHHHHHHH---------c-C-CCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC
Q 020071           22 TKVCDIVGNLDAVARLGIIAR---------D-G-NMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG   89 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~---------~-~-~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~   89 (331)
                      .+|+|++|.+.+++.|.+.+.         + | ..| ++||+||||||||++|+++++.+     +.+++.+++++..+
T Consensus         6 ~~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~-----~~~~~~i~~~~l~~   80 (247)
T d1ixza_           6 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA-----RVPFITASGSDFVE   80 (247)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEHHHHHH
T ss_pred             CcHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc-----CCCEEEEEhHHhhh
Confidence            489999999999988766542         1 2 233 39999999999999999999998     67888888654311


Q ss_pred             --h----HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHh--cCCcEEEEe
Q 020071           90 --I----DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIY--SNSTRFALA  147 (331)
Q Consensus        90 --~----~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~--~~~~~~I~~  147 (331)
                        .    ..+++.++.+.       ...+.||+|||+|.+..              ...+.|+..|+..  ..++.+|.+
T Consensus        81 ~~~g~~~~~l~~~f~~a~-------~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~t  153 (247)
T d1ixza_          81 MFVGVGAARVRDLFETAK-------RHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAA  153 (247)
T ss_dssp             SCTTHHHHHHHHHHHHHT-------TSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEE
T ss_pred             ccccHHHHHHHHHHHHHH-------HcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEe
Confidence              1    22333333322       23467999999986521              1345677777743  345677788


Q ss_pred             eCCCCCCChhhhc--ccc-eeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH-----hh
Q 020071          148 CNVSSKIIEPIQS--RCA-IVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT-----YS  218 (331)
Q Consensus       148 ~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~-----~~  218 (331)
                      ||.++.+.+++++  |+. .+.|++|+.++..++++..+.+.... ++..+..+++.+.| +.+.+.+.++.+     ..
T Consensus       154 Tn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~-~~~~~~~la~~t~g~s~~di~~lv~~A~l~a~~~  232 (247)
T d1ixza_         154 TNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLA-EDVDLALLAKRTPGFVGADLENLLNEAALLAARE  232 (247)
T ss_dssp             ESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             CCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCc-cccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHc
Confidence            9999999999984  774 78999999999999999887665433 33347888988876 334444444322     24


Q ss_pred             CCCccchhhhhhhc
Q 020071          219 GFRFVNQENVFKVC  232 (331)
Q Consensus       219 ~~~~i~~~~v~~~~  232 (331)
                      +...|+.+++.+++
T Consensus       233 ~~~~i~~~d~~~A~  246 (247)
T d1ixza_         233 GRRKITMKDLEEAA  246 (247)
T ss_dssp             TCSSBCHHHHHHHT
T ss_pred             CCCCcCHHHHHHhh
Confidence            55678888877643

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=99.86  E-value=1.2e-20  Score=158.40  Aligned_cols=197  Identities=19%  Similarity=0.200  Sum_probs=141.8

Q ss_pred             CCCCCccccCHHHHHHHHHHHHc-----------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC
Q 020071           21 PTKVCDIVGNLDAVARLGIIARD-----------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR   88 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~-----------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (331)
                      +.+|+|++|.+..++.+.+.+.-           ...| ++|||||||||||++|+++++.+     +.+++.+++++..
T Consensus         8 ~~t~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~-----~~~~~~i~~~~l~   82 (256)
T d1lv7a_           8 KTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA-----KVPFFTISGSDFV   82 (256)
T ss_dssp             CCCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH-----TCCEEEECSCSST
T ss_pred             CCCHHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc-----CCCEEEEEhHHhh
Confidence            45899999999999988766531           2233 39999999999999999999999     7888998887653


Q ss_pred             C------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHHHh--cCCcEEEE
Q 020071           89 G------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------------GAQQALRRTMEIY--SNSTRFAL  146 (331)
Q Consensus        89 ~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------------~~~~~Ll~~le~~--~~~~~~I~  146 (331)
                      +      ...+++.++.+..       ..+.|++|||+|.+..              ...+.|+..++..  ..++.+|.
T Consensus        83 ~~~~g~~~~~l~~~f~~A~~-------~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIa  155 (256)
T d1lv7a_          83 EMFVGVGASRVRDMFEQAKK-------AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIA  155 (256)
T ss_dssp             TSCCCCCHHHHHHHHHHHHT-------TCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEE
T ss_pred             hcchhHHHHHHHHHHHHHHH-------cCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEE
Confidence            2      2345555554432       3367999999986521              1345677777743  34577888


Q ss_pred             eeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH-----h
Q 020071          147 ACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQAT-----Y  217 (331)
Q Consensus       147 ~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~~~-----~  217 (331)
                      +||.++.+.+++++  |+ ..+.|++|+.++..++++....+.++. ++..+..+++.+.| +.+.+.+.++.+     .
T Consensus       156 tTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G~s~adi~~l~~~A~~~a~~  234 (256)
T d1lv7a_         156 ATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANLVNEAALFAAR  234 (256)
T ss_dssp             EESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBC-TTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             eCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcC-cccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999985  77 578999999999999998887665544 34457788888765 445555555432     2


Q ss_pred             hCCCccchhhhhh
Q 020071          218 SGFRFVNQENVFK  230 (331)
Q Consensus       218 ~~~~~i~~~~v~~  230 (331)
                      .+...|+.+++.+
T Consensus       235 ~~~~~i~~~d~~~  247 (256)
T d1lv7a_         235 GNKRVVSMVEFEK  247 (256)
T ss_dssp             TTCSSBCHHHHHH
T ss_pred             cCCCccCHHHHHH
Confidence            4455577666654

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.82  E-value=3.8e-18  Score=145.14  Aligned_cols=211  Identities=18%  Similarity=0.232  Sum_probs=150.0

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHc------CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARD------GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~------~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      ..++...|+|..   ++|++..++.+..++..      +..++++|+||||+|||++++.+++.+.+.. ...++.+++.
T Consensus         6 ~~~l~~~y~p~~---l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~-~~~~~~~~~~   81 (276)
T d1fnna2           6 DSVFSPSYVPKR---LPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGF   81 (276)
T ss_dssp             GGGGSTTCCCSC---CTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETT
T ss_pred             cccCCCCCCCCC---CCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhccc-CCcEEEecch
Confidence            346788898865   58999998888888753      2345699999999999999999999986432 3345555544


Q ss_pred             CCCChH----------------------hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHH----hc
Q 020071           86 DDRGID----------------------VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEI----YS  139 (331)
Q Consensus        86 ~~~~~~----------------------~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~----~~  139 (331)
                      ......                      .....+......     .....+.++|+++.+.....+.+...++.    ..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~  156 (276)
T d1fnna2          82 IYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRE-----RDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGA  156 (276)
T ss_dssp             TCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHH-----TTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSS
T ss_pred             hhhhhhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhh-----cccccccchhHHHHhhhhhhhhHHHHHhccccccc
Confidence            322111                      111111111111     23467888999999988777766655542    23


Q ss_pred             CCcEEEEeeCCC---CCCChhhhccc--ceeeecCCCHHHHHHHHHHHHHh--cCCCCCHHHHHHHHHhc---------C
Q 020071          140 NSTRFALACNVS---SKIIEPIQSRC--AIVRFSRLSDEEILSRLMVVVQE--EKVPYVPEGLEAIIFTA---------D  203 (331)
Q Consensus       140 ~~~~~I~~~~~~---~~l~~~l~sr~--~~i~~~~~~~~~~~~~l~~~~~~--~~~~i~~~~~~~l~~~~---------~  203 (331)
                      ..+.+|++++..   ..+.+.+.+|+  ..+.|+|++.+++.+++.++++.  ....+++++++.+++.+         +
T Consensus       157 ~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~~~  236 (276)
T d1fnna2         157 FRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNR  236 (276)
T ss_dssp             CCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTS
T ss_pred             cceEEeecCCchhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhhcC
Confidence            456777777764   46778888886  45899999999999999998876  34458999999998764         7


Q ss_pred             CCHHHHHHHHHHHh-----hCCCccchhhhhhh
Q 020071          204 GDMRQALNNLQATY-----SGFRFVNQENVFKV  231 (331)
Q Consensus       204 g~~r~~~~~l~~~~-----~~~~~i~~~~v~~~  231 (331)
                      ||+|.+++.++.+.     .+...|+.++|.+.
T Consensus       237 G~~R~a~~ll~~a~~~A~~~~~~~I~~edv~~A  269 (276)
T d1fnna2         237 GDARLAIDILYRSAYAAQQNGRKHIAPEDVRKS  269 (276)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHH
Confidence            99999999997652     45667888888763

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.77  E-value=4.1e-18  Score=143.63  Aligned_cols=179  Identities=20%  Similarity=0.216  Sum_probs=127.0

Q ss_pred             CCCccccCHHHHHHHHHHHHc-----------C-CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC-
Q 020071           23 KVCDIVGNLDAVARLGIIARD-----------G-NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR-   88 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~-----------~-~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~-   88 (331)
                      .|+|+.|.+..++.+++.+..           | ..|. +|||||||||||++++++++.+     +.+++.+++++.. 
T Consensus         2 ~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~-----~~~~~~i~~~~l~~   76 (258)
T d1e32a2           2 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET-----GAFFFLINGPEIMS   76 (258)
T ss_dssp             CGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT-----TCEEEEECHHHHTT
T ss_pred             ChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh-----CCeEEEEEchhhcc
Confidence            689999999999998887431           3 2333 9999999999999999999998     7778888764321 


Q ss_pred             ---C--hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH-----------HHHHHHHHHH--HhcCCcEEEEeeCC
Q 020071           89 ---G--IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG-----------AQQALRRTME--IYSNSTRFALACNV  150 (331)
Q Consensus        89 ---~--~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~-----------~~~~Ll~~le--~~~~~~~~I~~~~~  150 (331)
                         +  ...++..+..+..       ..+.|++|||+|.+...           ....++..++  ....++.+|++||.
T Consensus        77 ~~~g~~~~~l~~~f~~A~~-------~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~  149 (258)
T d1e32a2          77 KLAGESESNLRKAFEEAEK-------NAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNR  149 (258)
T ss_dssp             SCTTHHHHHHHHHHHHHHH-------TCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESC
T ss_pred             cccccHHHHHHHHHHHHHh-------cCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCCC
Confidence               1  2234444333332       23679999999998532           2334444444  23456778889999


Q ss_pred             CCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHH
Q 020071          151 SSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQ  214 (331)
Q Consensus       151 ~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~  214 (331)
                      +..+.+++++  |+ ..+.|++|+.++...+++..+++..+. ++..++.|++.+.| +.+.+.+.++
T Consensus       150 ~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~-~~~~~~~la~~t~G~s~adl~~lv~  216 (258)
T d1e32a2         150 PNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DDVDLEQVANETHGHVGADLAALCS  216 (258)
T ss_dssp             GGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBC-TTCCHHHHHHHCTTCCHHHHHHHHH
T ss_pred             ccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccc-cccchhhhhhcccCCCHHHHHHHHH
Confidence            9999999987  77 568999999999999998877654432 22347889998876 4444444443

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.75  E-value=4.2e-17  Score=139.33  Aligned_cols=212  Identities=20%  Similarity=0.158  Sum_probs=141.0

Q ss_pred             CchhhhcCCCCCCccccCHHHHHHHHHH----HHcCCCCe-----EEEeCCCCccHHHHHHHHHHHhcCC----CCCCce
Q 020071           13 IPWVEKYRPTKVCDIVGNLDAVARLGII----ARDGNMPN-----LILAGPPGTGKTTSILALAHELLGP----NYREAV   79 (331)
Q Consensus        13 ~~~~~~~~p~~~~~~ig~~~~~~~l~~~----l~~~~~~~-----~ll~G~~G~GKt~la~~l~~~l~~~----~~~~~~   79 (331)
                      .+|..+|+|..+   .|++..++.+.+.    +..|..+.     ++||||||+|||++++++++.+...    .....+
T Consensus         7 ~~l~~~~~P~~~---~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~   83 (287)
T d1w5sa2           7 RVFDENYIPPEL---RVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQ   83 (287)
T ss_dssp             GGGSTTCCCSSC---SSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEE
T ss_pred             hhcCCccCCCCC---CCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCcee
Confidence            478899998655   6776666665554    44443332     5789999999999999999987532    112334


Q ss_pred             EEeecCCCCCh----------------------HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC------CHHHHHHH
Q 020071           80 MELNASDDRGI----------------------DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM------TAGAQQAL  131 (331)
Q Consensus        80 ~~~~~~~~~~~----------------------~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l------~~~~~~~L  131 (331)
                      ..+++......                      ....+.+......     .....++++|++|.+      ..+....+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~iide~d~l~~~~~~~~~~~~~l  158 (287)
T d1w5sa2          84 AYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYV-----ENHYLLVILDEFQSMLSSPRIAAEDLYTL  158 (287)
T ss_dssp             EEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHH-----HTCEEEEEEESTHHHHSCTTSCHHHHHHH
T ss_pred             eeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHh-----ccCccccceeEEEEeccccccchhHHHHH
Confidence            44443332211                      1111222221111     234678899998766      34555666


Q ss_pred             HHHHHHhc-----CCcEEEEeeCCCC------CCChhhhcc-cceeeecCCCHHHHHHHHHHHHHhc--CCCCCHHHHHH
Q 020071          132 RRTMEIYS-----NSTRFALACNVSS------KIIEPIQSR-CAIVRFSRLSDEEILSRLMVVVQEE--KVPYVPEGLEA  197 (331)
Q Consensus       132 l~~le~~~-----~~~~~I~~~~~~~------~l~~~l~sr-~~~i~~~~~~~~~~~~~l~~~~~~~--~~~i~~~~~~~  197 (331)
                      ..+++...     ....+|++++...      ...+.+.+| +..+.|+|++.+++.+++..+++..  ...+++++++.
T Consensus       159 ~~l~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~  238 (287)
T d1w5sa2         159 LRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLEL  238 (287)
T ss_dssp             HTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHH
T ss_pred             HHHHHhcchhhcccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHH
Confidence            66666432     3556677766543      233566665 6789999999999999999998753  34589999999


Q ss_pred             HHHhc------CCCHHHHHHHHHHHh-----hCCCccchhhhhhhc
Q 020071          198 IIFTA------DGDMRQALNNLQATY-----SGFRFVNQENVFKVC  232 (331)
Q Consensus       198 l~~~~------~g~~r~~~~~l~~~~-----~~~~~i~~~~v~~~~  232 (331)
                      +++.+      .||+|++++.|+.+.     .+...||.++|.+++
T Consensus       239 ia~~~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~~~It~~~V~~A~  284 (287)
T d1w5sa2         239 ISDVYGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAV  284 (287)
T ss_dssp             HHHHHCGGGTSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHH
T ss_pred             HHHHHhccccCCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHH
Confidence            99876      699999999997653     566789999988754

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.73  E-value=1.2e-16  Score=133.69  Aligned_cols=201  Identities=13%  Similarity=0.143  Sum_probs=151.8

Q ss_pred             CCchhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEEeecCC
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVMELNASD   86 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~   86 (331)
                      ...|+++-+-..++.++|+++.+..+...+.....+|++|.||||+|||+++..+++.+....     ....++.++...
T Consensus         5 ~~dlt~~a~~~~ld~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~   84 (268)
T d1r6bx2           5 TTNLNQLARVGGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS   84 (268)
T ss_dssp             SCBHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-
T ss_pred             hHHHHHHHHcCCCCcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeech
Confidence            345677777788899999999999999999988878899999999999999999999876432     123466666543


Q ss_pred             C----CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC---------HHHHHHHHHHHHHhcCCcEEEEeeCCC--
Q 020071           87 D----RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT---------AGAQQALRRTMEIYSNSTRFALACNVS--  151 (331)
Q Consensus        87 ~----~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~---------~~~~~~Ll~~le~~~~~~~~I~~~~~~--  151 (331)
                      .    ....++.+.+........   ..+.-++||||+|.+-         .+..+.|..+|..  ....+|.+|+..  
T Consensus        85 liag~~~~g~~e~r~~~i~~~~~---~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~r--g~i~vIgatT~eey  159 (268)
T d1r6bx2          85 LLAGTKYRGDFEKRFKALLKQLE---QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTYQEF  159 (268)
T ss_dssp             --CCCCCSSCHHHHHHHHHHHHS---SSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS--CCCEEEEEECHHHH
T ss_pred             HhccCccchhHHHHHHHHHHHhh---ccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhC--CCCeEEEeCCHHHH
Confidence            3    123456665554444332   3456799999999882         2445666667763  568888887652  


Q ss_pred             ---CCCChhhhcccceeeecCCCHHHHHHHHHHHHH----hcCCCCCHHHHHHHHHhc------CCCHHHHHHHHHHHh
Q 020071          152 ---SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ----EEKVPYVPEGLEAIIFTA------DGDMRQALNNLQATY  217 (331)
Q Consensus       152 ---~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~i~~~~~~~l~~~~------~g~~r~~~~~l~~~~  217 (331)
                         ..-.+++.+||+.+.+.+|+.++...+|.....    .+++.++++++..+++++      ..-|.+++..++.++
T Consensus       160 ~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAIdllDea~  238 (268)
T d1r6bx2         160 SNIFEKDRALARRFQKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAG  238 (268)
T ss_dssp             HCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHHHHHHHH
T ss_pred             HHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHHHHhhccCCCCCcHHHHHHHHHH
Confidence               355789999999999999999999999877543    468999999999988775      357999999998764

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.72  E-value=8.2e-17  Score=131.33  Aligned_cols=183  Identities=15%  Similarity=0.180  Sum_probs=129.7

Q ss_pred             CCCccc-c--CHHHHHHHHHHHHcCCC--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHH
Q 020071           23 KVCDIV-G--NLDAVARLGIIARDGNM--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKI   97 (331)
Q Consensus        23 ~~~~~i-g--~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i   97 (331)
                      +|++++ |  +..+...++++++....  +.++||||+|+|||++++++++++...+  ..++.++..+.  ...+.+.+
T Consensus         8 tFdnF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~--~~~~~~~~~~~--~~~~~~~~   83 (213)
T d1l8qa2           8 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRG--YRVIYSSADDF--AQAMVEHL   83 (213)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTT--CCEEEEEHHHH--HHHHHHHH
T ss_pred             ChhhccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCc--cceEEechHHH--HHHHHHHH
Confidence            889875 5  67777778888775432  2389999999999999999999986543  33444443321  01111111


Q ss_pred             -----HHHHhcccCCCCCCceEEEEeCCCCCC--HHHHHHHHHHHHHh-cCCcEEEEeeCCC----CCCChhhhccc---
Q 020071           98 -----KMFAQKKVTLPPGKHKVVVLDEADSMT--AGAQQALRRTMEIY-SNSTRFALACNVS----SKIIEPIQSRC---  162 (331)
Q Consensus        98 -----~~~~~~~~~~~~~~~~vviide~d~l~--~~~~~~Ll~~le~~-~~~~~~I~~~~~~----~~l~~~l~sr~---  162 (331)
                           ..+...     .....+++|||+|.+.  +..++.|..++... ..+..+|++++.+    ..+.+.++||+   
T Consensus        84 ~~~~~~~~~~~-----~~~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g  158 (213)
T d1l8qa2          84 KKGTINEFRNM-----YKSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGG  158 (213)
T ss_dssp             HHTCHHHHHHH-----HHTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTS
T ss_pred             HccchhhHHHH-----HhhccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCc
Confidence                 011110     1235699999999884  56677888888753 3566778887654    34568899994   


Q ss_pred             ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Q 020071          163 AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADGDMRQALNNLQAT  216 (331)
Q Consensus       163 ~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g~~r~~~~~l~~~  216 (331)
                      .++.++ |+.++..+++++++...|+.++++++++|++++ .|+|.+...+..+
T Consensus       159 ~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~-~~~R~L~~~l~~l  210 (213)
T d1l8qa2         159 ILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-KNVREIEGKIKLI  210 (213)
T ss_dssp             EEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-SSHHHHHHHHHHH
T ss_pred             eEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc-CcHHHHHHHHHHh
Confidence            567775 577889999999999999999999999999997 5899888777654

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.72  E-value=3.4e-18  Score=144.55  Aligned_cols=181  Identities=20%  Similarity=0.212  Sum_probs=120.3

Q ss_pred             CC-CCCccccCHHHHHHHHHHHH----------c-CCC--CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           21 PT-KVCDIVGNLDAVARLGIIAR----------D-GNM--PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        21 p~-~~~~~ig~~~~~~~l~~~l~----------~-~~~--~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      |. +|+|+.|.+++++.+.+.+.          + |..  .++|||||+|+|||++|++++..+     +.+++.+++++
T Consensus         2 p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~-----~~~~~~~~~~~   76 (265)
T d1r7ra3           2 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISIKGPE   76 (265)
T ss_dssp             CCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT-----TCEEEEECHHH
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh-----CCcEEEEEHHH
Confidence            45 89999998888777766542          1 322  249999999999999999999999     77788887543


Q ss_pred             C----C--ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH--------------HHHHHHHHHHHh--cCCcEE
Q 020071           87 D----R--GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG--------------AQQALRRTMEIY--SNSTRF  144 (331)
Q Consensus        87 ~----~--~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~--------------~~~~Ll~~le~~--~~~~~~  144 (331)
                      .    .  ....++..+..+..       ..+.+++|||+|.+...              ..+.|+..++..  ..++.+
T Consensus        77 l~~~~~~~~~~~l~~~f~~A~~-------~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~v  149 (265)
T d1r7ra3          77 LLTMWFGESEANVREIFDKARQ-------AAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFI  149 (265)
T ss_dssp             HHTSCTTTHHHHHHHHHHHHHH-------TCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEE
T ss_pred             hhhccccchHHHHHHHHHHHHh-------cCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEE
Confidence            2    1  12334444444332       23679999999977421              234556555432  335788


Q ss_pred             EEeeCCCCCCChhhhc--cc-ceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-CHHHHHHHHH
Q 020071          145 ALACNVSSKIIEPIQS--RC-AIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-DMRQALNNLQ  214 (331)
Q Consensus       145 I~~~~~~~~l~~~l~s--r~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-~~r~~~~~l~  214 (331)
                      |++||.++.+++++++  |+ ..+.|++|+.++..++++..+++.... .+..++.+++.+.| +.+.+.+.++
T Consensus       150 i~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~-~~~~l~~la~~t~g~s~~di~~lv~  222 (265)
T d1r7ra3         150 IGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA-KDVDLEFLAKMTNGFSGADLTEICQ  222 (265)
T ss_dssp             EECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC-----CCCCHHHHHHHCSSCCHHHHHHHH
T ss_pred             EEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCch-hhhhHHHHHhcCCCCCHHHHHHHHH
Confidence            8999999999999986  65 467999999999999998766532211 12235667777654 4444444443

>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=99.65  E-value=8.1e-15  Score=122.04  Aligned_cols=203  Identities=16%  Similarity=0.167  Sum_probs=139.3

Q ss_pred             ccccCHHHHHHHHHHHHcC-C-CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhc
Q 020071           26 DIVGNLDAVARLGIIARDG-N-MPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQK  103 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~-~-~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~  103 (331)
                      ++||++..++.+.+.++.- . ..+++++||+|+||+.+|++++.....  ...+++.+++..... ......+-.....
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~~--~~~~~~~~~~~~~~~-~~~~~~lfg~~~~   77 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLSDR--SKEPFVALNVASIPR-DIFEAELFGYEKG   77 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHSTT--TTSCEEEEETTTSCH-HHHHHHHHCBCTT
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCC--cccccccchhhhhhh-cccHHHhcCcccC
Confidence            5799999999888877663 2 223999999999999999999985433  355678888776532 2222222111111


Q ss_pred             ccCCC---------CCCceEEEEeCCCCCCHHHHHHHHHHHHHhc-----------CCcEEEEeeCCC-------CCCCh
Q 020071          104 KVTLP---------PGKHKVVVLDEADSMTAGAQQALRRTMEIYS-----------NSTRFALACNVS-------SKIIE  156 (331)
Q Consensus       104 ~~~~~---------~~~~~vviide~d~l~~~~~~~Ll~~le~~~-----------~~~~~I~~~~~~-------~~l~~  156 (331)
                      .+...         ..++++++|||+|.++...|..|++++++..           .++++|++++..       ..+.+
T Consensus        78 ~~~~~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~~l~~l~~~~~f~~  157 (247)
T d1ny5a2          78 AFTGAVSSKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNRNIKELVKEGKFRE  157 (247)
T ss_dssp             SSTTCCSCBCCHHHHTTTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESSCHHHHHHTTSSCH
T ss_pred             CcCCcccccCCHHHccCCCEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCCCHHHHHHcCCCcH
Confidence            11000         1235699999999999999999999998522           357899988753       24566


Q ss_pred             hhhccc--ceeeecCCCH--HHHHHHHHH----HHHhcCC---CCCHHHHHHHHHhc-CCCHHHHHHHHHHHh--hCCCc
Q 020071          157 PIQSRC--AIVRFSRLSD--EEILSRLMV----VVQEEKV---PYVPEGLEAIIFTA-DGDMRQALNNLQATY--SGFRF  222 (331)
Q Consensus       157 ~l~sr~--~~i~~~~~~~--~~~~~~l~~----~~~~~~~---~i~~~~~~~l~~~~-~g~~r~~~~~l~~~~--~~~~~  222 (331)
                      .+..|+  ..+.++|+.+  +++..++..    .+.+.+.   .+++++++.|..+. .||++++.+.++.++  ..+..
T Consensus       158 ~L~~~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~~~WPGNl~EL~~~l~~a~~~~~~~~  237 (247)
T d1ny5a2         158 DLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLSYPWYGNVRELKNVIERAVLFSEGKF  237 (247)
T ss_dssp             HHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHHSCCTTHHHHHHHHHHHHHHHCCSSE
T ss_pred             HHHhhcCeeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCCe
Confidence            676764  3467888853  566544444    4444443   37899999998887 799999999998764  45667


Q ss_pred             cchhhhhhh
Q 020071          223 VNQENVFKV  231 (331)
Q Consensus       223 i~~~~v~~~  231 (331)
                      |+.+++-.+
T Consensus       238 I~~~dl~~l  246 (247)
T d1ny5a2         238 IDRGELSCL  246 (247)
T ss_dssp             ECHHHHHHH
T ss_pred             ECHHHcccc
Confidence            888877543

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.61  E-value=1e-14  Score=128.56  Aligned_cols=199  Identities=17%  Similarity=0.183  Sum_probs=139.7

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC-----CCceEEeecCCCC
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY-----REAVMELNASDDR   88 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~-----~~~~~~~~~~~~~   88 (331)
                      .++++-+-..++.++|++..+..+...+.....++++|.||||+|||+++..+++.+.....     +..++.++.....
T Consensus        11 ~l~~~a~~g~ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~   90 (387)
T d1qvra2          11 DLTRLAAEGKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLL   90 (387)
T ss_dssp             EHHHHHHTTCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC----
T ss_pred             HHHHHHHcCCCCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhh
Confidence            35566667788999999999999999999887777999999999999999999998754321     2356666654432


Q ss_pred             ----ChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC--------HHHHHHHHHHHHHhcCCcEEEEeeCCC-----
Q 020071           89 ----GIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT--------AGAQQALRRTMEIYSNSTRFALACNVS-----  151 (331)
Q Consensus        89 ----~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~--------~~~~~~Ll~~le~~~~~~~~I~~~~~~-----  151 (331)
                          ...++.+.+.........  ..+.-|+||||+|.+-        .++.+.|..+|..  ...++|.+|+..     
T Consensus        91 ag~~~~g~~e~r~~~i~~~~~~--~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r--g~~~~I~~tT~~ey~~~  166 (387)
T d1qvra2          91 AGAKYRGEFEERLKAVIQEVVQ--SQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEYREI  166 (387)
T ss_dssp             -------CHHHHHHHHHHHHHT--TCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHHHHH
T ss_pred             cccCcchhHHHHHHHHHHHhcc--CCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhC--CCcceeeecCHHHHHHh
Confidence                123455554443332210  1235689999999883        2456888889976  557778877642     


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHHHHHHH----hcCCCCCHHHHHHHHHhc------CCCHHHHHHHHHHHh
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRLMVVVQ----EEKVPYVPEGLEAIIFTA------DGDMRQALNNLQATY  217 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~----~~~~~i~~~~~~~l~~~~------~g~~r~~~~~l~~~~  217 (331)
                      .+ .+++.+||+.+.+.+|+.++...+|+....    .+++.++++++...++++      ..-|.+++.+++.++
T Consensus       167 e~-d~al~rrF~~v~v~ep~~~~~~~il~~~~~~~e~~h~v~~~~~ai~~~v~ls~ryi~~r~~PdKAidlld~a~  241 (387)
T d1qvra2         167 EK-DPALERRFQPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKAIDLIDEAA  241 (387)
T ss_dssp             TT-CTTTCSCCCCEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHHHHHHHHHH
T ss_pred             cc-cHHHHHhcccccCCCCcHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHhcccccccccChhhHHHHHHHHH
Confidence            33 688999999999999999999999887654    458999999999988775      368999999998764

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.60  E-value=7.6e-15  Score=122.18  Aligned_cols=175  Identities=15%  Similarity=0.202  Sum_probs=108.6

Q ss_pred             CCccccCHHHHHHHHH-------HHHcCC--CCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCC---Ch
Q 020071           24 VCDIVGNLDAVARLGI-------IARDGN--MPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDR---GI   90 (331)
Q Consensus        24 ~~~~ig~~~~~~~l~~-------~l~~~~--~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~---~~   90 (331)
                      .+.++|..+.+..+.+       .++.+.  .+. +|||||||||||++|+++++.+     +.+++.+++++..   ..
T Consensus         8 ~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~-----~~~~~~i~~~~~~~g~~~   82 (246)
T d1d2na_           8 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES-----NFPFIKICSPDKMIGFSE   82 (246)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH-----TCSEEEEECGGGCTTCCH
T ss_pred             ccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc-----cccccccccccccccccc
Confidence            3457776554443322       233332  222 8999999999999999999998     7788888875421   11


Q ss_pred             ----HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC----------CHHHHHHHHHHHHHhcC---CcEEEEeeCCCCC
Q 020071           91 ----DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM----------TAGAQQALRRTMEIYSN---STRFALACNVSSK  153 (331)
Q Consensus        91 ----~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l----------~~~~~~~Ll~~le~~~~---~~~~I~~~~~~~~  153 (331)
                          ..+++.+..+.       ...+.|++|||+|.+          .....+.|+..++....   .+.+|.+||.++.
T Consensus        83 ~~~~~~i~~if~~A~-------~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~  155 (246)
T d1d2na_          83 TAKCQAMKKIFDDAY-------KSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDV  155 (246)
T ss_dssp             HHHHHHHHHHHHHHH-------TSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHH
T ss_pred             cchhhhhhhhhhhhh-------hcccceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCCccccceeeeeccCChhh
Confidence                22333333332       234679999999765          23345677777775432   4567778888766


Q ss_pred             CChh-hhcccc-eeeecCCC-HHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCC-----CHHHHHHHHHH
Q 020071          154 IIEP-IQSRCA-IVRFSRLS-DEEILSRLMVVVQEEKVPYVPEGLEAIIFTADG-----DMRQALNNLQA  215 (331)
Q Consensus       154 l~~~-l~sr~~-~i~~~~~~-~~~~~~~l~~~~~~~~~~i~~~~~~~l~~~~~g-----~~r~~~~~l~~  215 (331)
                      +.+. +++|+. .+.++.++ .+++.+++...    + .+++.....+++.+.|     .++.+++.++.
T Consensus       156 ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~~----~-~~~~~~~~~i~~~~~g~~~~~~ik~ll~~ie~  220 (246)
T d1d2na_         156 LQEMEMLNAFSTTIHVPNIATGEQLLEALELL----G-NFKDKERTTIAQQVKGKKVWIGIKKLLMLIEM  220 (246)
T ss_dssp             HHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH----T-CSCHHHHHHHHHHHTTSEEEECHHHHHHHHHH
T ss_pred             ccchhhcCccceEEecCCchhHHHHHHHHHhc----c-CCChHHHHHHHHHcCCCccchhHHHHHHHHHH
Confidence            6544 667775 46775443 34555554432    2 4667777777777665     36666666554

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.58  E-value=2.8e-15  Score=129.33  Aligned_cols=147  Identities=23%  Similarity=0.309  Sum_probs=99.1

Q ss_pred             cccCHHHHHHHHHHHHc-------------C-CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC---
Q 020071           27 IVGNLDAVARLGIIARD-------------G-NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG---   89 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~-------------~-~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~---   89 (331)
                      ++||+++++.+..++.+             + ...++||+||||||||.+|+++++.+     ..+++.++++....   
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~-----~~~~~~i~~s~~~~~~~   90 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA-----NAPFIKVEATKFTEVGY   90 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH-----TCCEEEEEGGGGSSCCS
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc-----ccchhccccccccccee
Confidence            79999999998877631             1 23349999999999999999999998     66778877655321   


Q ss_pred             -h----HhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHH------------HHHHHHHHHHHh----------cCCc
Q 020071           90 -I----DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAG------------AQQALRRTMEIY----------SNST  142 (331)
Q Consensus        90 -~----~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~------------~~~~Ll~~le~~----------~~~~  142 (331)
                       .    ..++...........  ....+.||++||+|++++.            .++.|+..++..          ..++
T Consensus        91 ~~~~~~~~~~~~f~~a~~~~~--~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~i  168 (309)
T d1ofha_          91 VGKEVDSIIRDLTDSAGGAID--AVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHI  168 (309)
T ss_dssp             GGGSTTHHHHHHHHTTTTCHH--HHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTC
T ss_pred             Eeeeccccccccchhhhcccc--cccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEccce
Confidence             1    123333221111000  0012579999999998532            467788888731          1234


Q ss_pred             EEEEe----eCCCCCCChhhhcccce-eeecCCCHHHHHHHHH
Q 020071          143 RFALA----CNVSSKIIEPIQSRCAI-VRFSRLSDEEILSRLM  180 (331)
Q Consensus       143 ~~I~~----~~~~~~l~~~l~sr~~~-i~~~~~~~~~~~~~l~  180 (331)
                      .||++    .+.+..+.|.++.|+.. +.|.+|+..++.+++.
T Consensus       169 lfi~~ga~~~~~~~~~~p~l~~R~~~~i~~~~~~~~~~~~Il~  211 (309)
T d1ofha_         169 LFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILT  211 (309)
T ss_dssp             EEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHH
T ss_pred             eEEeccchhhcCcccchhhhhhhhheeeeccCCCHHHHHHHHH
Confidence            45544    24456788999999854 7899999999988864

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.57  E-value=6.6e-14  Score=120.75  Aligned_cols=167  Identities=17%  Similarity=0.203  Sum_probs=118.8

Q ss_pred             CccccCHHHHHHHHHHHHc--------CCCC-eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC------
Q 020071           25 CDIVGNLDAVARLGIIARD--------GNMP-NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG------   89 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~--------~~~~-~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~------   89 (331)
                      ..++||+++++.+...+..        .++. .++|+||+|+|||.+|+.+++.+     ..+++.++++....      
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l-----~~~~i~~d~s~~~~~~~~~~   96 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTVSR   96 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH-----TCEEEEEEGGGCSSSSCCSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc-----cCCeeEeccccccchhhhhh
Confidence            3589999999988777642        2222 37999999999999999999998     56677777653311      


Q ss_pred             --------hH-hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeC
Q 020071           90 --------ID-VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACN  149 (331)
Q Consensus        90 --------~~-~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~  149 (331)
                              .. .....+.....      ..++.|+++||+|+.+++.++.|++++++.           -.++.+|+++|
T Consensus        97 l~g~~~gy~g~~~~~~l~~~~~------~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsn  170 (315)
T d1r6bx3          97 LIGAPPGYVGFDQGGLLTDAVI------KHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTN  170 (315)
T ss_dssp             SCCCCSCSHHHHHTTHHHHHHH------HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEEC
T ss_pred             hcccCCCccccccCChhhHHHH------hCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEeccc
Confidence                    00 01111122111      234789999999999999999999999852           25677888877


Q ss_pred             CCC-------------------------CCChhhhcccc-eeeecCCCHHHHHHHHHHHHH-------hcC--CCCCHHH
Q 020071          150 VSS-------------------------KIIEPIQSRCA-IVRFSRLSDEEILSRLMVVVQ-------EEK--VPYVPEG  194 (331)
Q Consensus       150 ~~~-------------------------~l~~~l~sr~~-~i~~~~~~~~~~~~~l~~~~~-------~~~--~~i~~~~  194 (331)
                      --.                         .+.|.+.+|+. ++.|.|++.+++.+++...+.       ..+  +.+++++
T Consensus       171 ig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l~~~~~~l~~~~i~l~~~~~a  250 (315)
T d1r6bx3         171 AGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEA  250 (315)
T ss_dssp             SSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTTEEEEECHHH
T ss_pred             hhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhcCcchhhHHHH
Confidence            311                         25678888985 679999999998888655433       223  4578999


Q ss_pred             HHHHHHhc
Q 020071          195 LEAIIFTA  202 (331)
Q Consensus       195 ~~~l~~~~  202 (331)
                      .++|+...
T Consensus       251 ~~~l~~~~  258 (315)
T d1r6bx3         251 RNWLAEKG  258 (315)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhC
Confidence            99998764

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.53  E-value=8.4e-14  Score=119.85  Aligned_cols=169  Identities=19%  Similarity=0.275  Sum_probs=120.1

Q ss_pred             ccccCHHHHHHHHHHHHc-------CCCC--eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhH---
Q 020071           26 DIVGNLDAVARLGIIARD-------GNMP--NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVV---   93 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~-------~~~~--~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i---   93 (331)
                      .++||+++++.+...+..       ...|  .++|+||+|+|||.+|+.+++.+.+.  ..+++.++++.......+   
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~--~~~~~~~~~~~~~~~~~~~~L  101 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHAVSRL  101 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS--GGGEEEECTTTCCSSGGGGGC
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCC--CcceEEEeccccccchhhhhh
Confidence            579999999988776642       1222  26999999999999999999998644  456777776544221100   


Q ss_pred             ------------HHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh-----------cCCcEEEEeeCC
Q 020071           94 ------------RNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY-----------SNSTRFALACNV  150 (331)
Q Consensus        94 ------------~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~-----------~~~~~~I~~~~~  150 (331)
                                  ...+.....      ..++.||++||+|+++++.++.|+.++++.           ..++.+|+++|-
T Consensus       102 ~g~~~gyvG~~~~~~l~~~~~------~~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~tsnl  175 (315)
T d1qvra3         102 IGAPPGYVGYEEGGQLTEAVR------RRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNL  175 (315)
T ss_dssp             --------------CHHHHHH------HCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCT
T ss_pred             cCCCCCCcCcccCChHHHHHH------hCCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEeccc
Confidence                        011111111      134789999999999999999999999852           146677888773


Q ss_pred             --------------------------CCCCChhhhcccce-eeecCCCHHHHHHHHHHHHH-------hcC--CCCCHHH
Q 020071          151 --------------------------SSKIIEPIQSRCAI-VRFSRLSDEEILSRLMVVVQ-------EEK--VPYVPEG  194 (331)
Q Consensus       151 --------------------------~~~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~~~~-------~~~--~~i~~~~  194 (331)
                                                ...+.|.+.+|+.. +.|.|++.+++.+++.....       ..+  +.+++++
T Consensus       176 G~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~~~~i~l~i~~~~  255 (315)
T d1qvra3         176 GSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAA  255 (315)
T ss_dssp             THHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHH
T ss_pred             ChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHhcCCeeeeccchhhhhhHHHHHHHHHHHHHHHHhccccccccHHH
Confidence                                      13578899999865 58999999999888764433       223  4568999


Q ss_pred             HHHHHHhc
Q 020071          195 LEAIIFTA  202 (331)
Q Consensus       195 ~~~l~~~~  202 (331)
                      .++|++.+
T Consensus       256 ~~~L~~~~  263 (315)
T d1qvra3         256 KDFLAERG  263 (315)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhC
Confidence            99999874

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=99.52  E-value=1.6e-13  Score=120.19  Aligned_cols=182  Identities=19%  Similarity=0.255  Sum_probs=116.3

Q ss_pred             ccccCHHHHHHHHHHHHc-----------------------------C-CCCeEEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           26 DIVGNLDAVARLGIIARD-----------------------------G-NMPNLILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~-----------------------------~-~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      .++||+++++.+..++.+                             . ..+++||.||+|+|||.+|+.+++.+     
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~-----   92 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL-----   92 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT-----
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc-----
Confidence            489999999887765521                             2 23449999999999999999999987     


Q ss_pred             CCceEEeecCCCCCh--------HhHHHHHHHHHhcccCCCCCCceEEEEeCCCC--------------CCHHHHHHHHH
Q 020071           76 REAVMELNASDDRGI--------DVVRNKIKMFAQKKVTLPPGKHKVVVLDEADS--------------MTAGAQQALRR  133 (331)
Q Consensus        76 ~~~~~~~~~~~~~~~--------~~i~~~i~~~~~~~~~~~~~~~~vviide~d~--------------l~~~~~~~Ll~  133 (331)
                      ..+++.++++.....        ..+.+.+...   +......++.+|++||+++              .++..++.|++
T Consensus        93 ~~~~ir~D~s~~~e~gyvg~dv~~~i~~l~~~~---~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLq  169 (364)
T d1um8a_          93 DIPIAISDATSLTEAGYVGEDVENILTRLLQAS---DWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLK  169 (364)
T ss_dssp             TCCEEEEEGGGCC--------CTHHHHHHHHHT---TTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHH
T ss_pred             ccceeehhhhhcccchhhHhhhccchhhhhhhc---hhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhh
Confidence            667887776654321        2233333221   1101123578999999998              55668999999


Q ss_pred             HHHHhc-------------CCcEEEEeeCC-------------------------------------------------C
Q 020071          134 TMEIYS-------------NSTRFALACNV-------------------------------------------------S  151 (331)
Q Consensus       134 ~le~~~-------------~~~~~I~~~~~-------------------------------------------------~  151 (331)
                      .++...             .++.++.++|-                                                 .
T Consensus       170 ild~~~~~~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  249 (364)
T d1um8a_         170 IVEGSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVT  249 (364)
T ss_dssp             HHHCCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHH
T ss_pred             hhcCceeccCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhh
Confidence            999311             12222222211                                                 0


Q ss_pred             CCCChhhhcccce-eeecCCCHHHHHHHHHH-----------HHHhcCC--CCCHHHHHHHHHhc---CCCHHHHHHHHH
Q 020071          152 SKIIEPIQSRCAI-VRFSRLSDEEILSRLMV-----------VVQEEKV--PYVPEGLEAIIFTA---DGDMRQALNNLQ  214 (331)
Q Consensus       152 ~~l~~~l~sr~~~-i~~~~~~~~~~~~~l~~-----------~~~~~~~--~i~~~~~~~l~~~~---~g~~r~~~~~l~  214 (331)
                      ..+.|.+..|... +.|.|++.+++.+++..           .++.+|+  .++++++++|++.+   .--.|.+...++
T Consensus       250 ~~f~PEf~gRi~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g~d~~~GAR~L~riie  329 (364)
T d1um8a_         250 YGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIE  329 (364)
T ss_dssp             TTCCHHHHTTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHH
T ss_pred             hhhHHHHHHHhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhccCCCCCchHHHHHHH
Confidence            1256778888755 69999999999998852           2333454  46899999999864   223444444444


Q ss_pred             H
Q 020071          215 A  215 (331)
Q Consensus       215 ~  215 (331)
                      .
T Consensus       330 ~  330 (364)
T d1um8a_         330 D  330 (364)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.51  E-value=6.3e-14  Score=110.60  Aligned_cols=162  Identities=17%  Similarity=0.232  Sum_probs=119.8

Q ss_pred             chhhhcCCCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCC-----CCCceEEeecCC--
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPN-----YREAVMELNASD--   86 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~-----~~~~~~~~~~~~--   86 (331)
                      .++++.+...++.++|++..+..+...+.....+|++|.||||+|||+++..+++.+....     .+..++.++...  
T Consensus        11 dlt~~a~~g~ld~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~Li   90 (195)
T d1jbka_          11 DLTERAEQGKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALV   90 (195)
T ss_dssp             EHHHHHHTTCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHH
T ss_pred             HHHHHHHcCCCCCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHh
Confidence            3566677788899999999999999999988878899999999999999999999875432     134566666432  


Q ss_pred             --CCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--------HHHHHHHHHHHHhcCCcEEEEeeCCC-----
Q 020071           87 --DRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--------GAQQALRRTMEIYSNSTRFALACNVS-----  151 (331)
Q Consensus        87 --~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--------~~~~~Ll~~le~~~~~~~~I~~~~~~-----  151 (331)
                        .....++.+.+.........  ..+.-|++|||++.+-.        +..+.|..+|+.  ....+|.+|+..     
T Consensus        91 Ag~~~rG~~E~rl~~il~e~~~--~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT~eey~~~  166 (195)
T d1jbka_          91 AGAKYRGEFEERLKGVLNDLAK--QEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEYRQY  166 (195)
T ss_dssp             TTTCSHHHHHHHHHHHHHHHHH--STTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHHHHH
T ss_pred             ccCCccHHHHHHHHHHHHHHhc--CCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCCHHHHHHH
Confidence              22334565555444432210  22356999999998832        245888889985  567788887642     


Q ss_pred             CCCChhhhcccceeeecCCCHHHHHHHH
Q 020071          152 SKIIEPIQSRCAIVRFSRLSDEEILSRL  179 (331)
Q Consensus       152 ~~l~~~l~sr~~~i~~~~~~~~~~~~~l  179 (331)
                      ..-.+++.+||+.+.+.+|+.++...+|
T Consensus       167 ~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         167 IEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             TTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            3557999999999999999999877654

>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=99.51  E-value=2.9e-13  Score=118.07  Aligned_cols=211  Identities=19%  Similarity=0.168  Sum_probs=122.0

Q ss_pred             CCC-CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcC-------CCC----------------
Q 020071           20 RPT-KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLG-------PNY----------------   75 (331)
Q Consensus        20 ~p~-~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~-------~~~----------------   75 (331)
                      ||. .|.+++||++++..+.-.+-.....|+||+||||+|||++|+.++..+..       ...                
T Consensus         1 ~~~~~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (333)
T d1g8pa_           1 RPVFPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLST   80 (333)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCC
T ss_pred             CCCCChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccccchhhcccc
Confidence            455 79999999999986655444222236999999999999999999986621       000                


Q ss_pred             -----CCceEEeecCCC----CChHhHHHHHHHHHhccc--CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHh------
Q 020071           76 -----REAVMELNASDD----RGIDVVRNKIKMFAQKKV--TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIY------  138 (331)
Q Consensus        76 -----~~~~~~~~~~~~----~~~~~i~~~i~~~~~~~~--~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~------  138 (331)
                           ..++........    .+.-.+......-....-  ....+.++|+++||++.++++.+++|+..||+.      
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~~~~~aLl~~me~~~v~i~r  160 (333)
T d1g8pa_          81 NVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLDVAQSGENVVER  160 (333)
T ss_dssp             CEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHHHHHHHHHHHHHSEEEECC
T ss_pred             CcccccCceeeccCCCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHHHHHHHHHhhhhcCCeEEecc
Confidence                 001111111110    000011111111111000  000134789999999999999999999999963      


Q ss_pred             -------cCCcEEEEeeCCC-CCCChhhhcccce-eeecCCC-HHHHHHHHHHH--------------------------
Q 020071          139 -------SNSTRFALACNVS-SKIIEPIQSRCAI-VRFSRLS-DEEILSRLMVV--------------------------  182 (331)
Q Consensus       139 -------~~~~~~I~~~~~~-~~l~~~l~sr~~~-i~~~~~~-~~~~~~~l~~~--------------------------  182 (331)
                             |..+.+|.++|.. .++.+++.+|+.. +.+..+. ..+....+...                          
T Consensus       161 ~g~~~~~p~~f~liaa~Np~~~~l~~~llDRf~~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (333)
T d1g8pa_         161 DGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQIL  240 (333)
T ss_dssp             TTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCceecCCCCEEEEEecCccccccccchhhhhcceeeccCcchhhHHHHHHHhhhhcccChHHHHHHHHHHHHHHHHHHH
Confidence                   3455667776653 6799999999865 4555443 22222221111                          


Q ss_pred             ---HHhcCCCCCHHHHHHHHHhc---C-CCHHHHHHHHHHH-----hhCCCccchhhhhh
Q 020071          183 ---VQEEKVPYVPEGLEAIIFTA---D-GDMRQALNNLQAT-----YSGFRFVNQENVFK  230 (331)
Q Consensus       183 ---~~~~~~~i~~~~~~~l~~~~---~-g~~r~~~~~l~~~-----~~~~~~i~~~~v~~  230 (331)
                         ..-..+.++++....++...   + -++|.....++.+     ..+...|+.+++.+
T Consensus       241 ~~~~~l~~v~~~~~~~~~~~~~~~~~~~~S~R~~~~llrvArtiA~L~gr~~V~~~di~~  300 (333)
T d1g8pa_         241 EARERLPKVEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALEGATAVGRDHLKR  300 (333)
T ss_dssp             HHHHHGGGCBCCHHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHTTCSBCCHHHHHH
T ss_pred             HHhhcccceecCHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHcCCCCCCHHHHHH
Confidence               00123455666555544332   2 2677777766533     25677788888765

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.24  E-value=1.6e-10  Score=97.25  Aligned_cols=177  Identities=18%  Similarity=0.136  Sum_probs=110.8

Q ss_pred             CCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC--C---CCChH-----
Q 020071           22 TKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS--D---DRGID-----   91 (331)
Q Consensus        22 ~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~--~---~~~~~-----   91 (331)
                      ..-++++|+++.++++.+.    ..++++++||+|+|||++++.+++.+..     .+..++..  .   .....     
T Consensus         9 ~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~-----~~~~i~~~~~~~~~~~~~~~~~~~   79 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLE   79 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCC-----CeEEEEeccccccccccHHHHHHH
Confidence            3568899999999988653    3345899999999999999999998732     22222211  0   00011     


Q ss_pred             ------------------------------------------hHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHH--
Q 020071           92 ------------------------------------------VVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGA--  127 (331)
Q Consensus        92 ------------------------------------------~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~--  127 (331)
                                                                .+.+.++.....     ...+.++++||++.+....  
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~-----~~~~~~i~id~~~~~~~~~~~  154 (283)
T d2fnaa2          80 LQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQA-----SKDNVIIVLDEAQELVKLRGV  154 (283)
T ss_dssp             HHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHT-----CSSCEEEEEETGGGGGGCTTC
T ss_pred             HHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhh-----cccccccccchhhhhcccchH
Confidence                                                      112222222211     3456789999998774432  


Q ss_pred             --HHHHHHHHHHhcCCcEEEEeeCCCC---------CCC-hhhhcccceeeecCCCHHHHHHHHHHHHHhcCCCCCHHHH
Q 020071          128 --QQALRRTMEIYSNSTRFALACNVSS---------KII-EPIQSRCAIVRFSRLSDEEILSRLMVVVQEEKVPYVPEGL  195 (331)
Q Consensus       128 --~~~Ll~~le~~~~~~~~I~~~~~~~---------~l~-~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~  195 (331)
                        ...+...... ...+.+++++....         ... +....+...+.+.|++.++..+++.+.+...++..+  .+
T Consensus       155 ~~~~~l~~~~~~-~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~--~~  231 (283)
T d2fnaa2         155 NLLPALAYAYDN-LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK--DY  231 (283)
T ss_dssp             CCHHHHHHHHHH-CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC--CH
T ss_pred             HHHHHHHHHHHh-hhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHH--HH
Confidence              2334444443 34555666543311         111 222234567899999999999999998887776554  46


Q ss_pred             HHHHHhcCCCHHHHHHHHHH
Q 020071          196 EAIIFTADGDMRQALNNLQA  215 (331)
Q Consensus       196 ~~l~~~~~g~~r~~~~~l~~  215 (331)
                      +.+.+.++|.|..+......
T Consensus       232 ~~i~~~~~G~P~~L~~~~~~  251 (283)
T d2fnaa2         232 EVVYEKIGGIPGWLTYFGFI  251 (283)
T ss_dssp             HHHHHHHCSCHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHH
Confidence            89999999999865544443

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=99.20  E-value=3.1e-11  Score=105.29  Aligned_cols=150  Identities=15%  Similarity=0.041  Sum_probs=90.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCH--
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTA--  125 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~--  125 (331)
                      .++||||||+|||++|+++++.+     +.+++.+|+++..+...++..             .+..+.++|+++....  
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~~~-----~~~~i~in~s~~rs~~~l~~~-------------~~~~~~l~d~~~~~~~~~  217 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLELC-----GGKALNVNLPLDRLNFELGVA-------------IDQFLVVFEDVKGTGGES  217 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-----CCEEECCSSCTTTHHHHHGGG-------------TTCSCEEETTCCCSTTTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc-----CCCEEEEECcchhhHHHHHhH-------------HHHHHHHHHHHHHhhhhc
Confidence            38999999999999999999999     778999998876432221111             1233445555543320  


Q ss_pred             ---------HHHHHHHHHHHHhc--------------CCcEEEEeeCCCC-CCChhhhcccceeeecCCCHHHHHHHHHH
Q 020071          126 ---------GAQQALRRTMEIYS--------------NSTRFALACNVSS-KIIEPIQSRCAIVRFSRLSDEEILSRLMV  181 (331)
Q Consensus       126 ---------~~~~~Ll~~le~~~--------------~~~~~I~~~~~~~-~l~~~l~sr~~~i~~~~~~~~~~~~~l~~  181 (331)
                               +..+.|...++...              ...++|+|||+.. .+...++.++.++.+.|+.......++..
T Consensus       218 ~~~~~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~~~~~~~r~~Rf~~~i~~~~~~~~~~~~~~l~~  297 (362)
T d1svma_         218 RDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVPKTLQARFVKQIDFRPKDYLKHCLERSEF  297 (362)
T ss_dssp             TTCCCCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECSCCCCHHHHTTEEEEEECCCCHHHHHHHHTCTH
T ss_pred             cCCCCeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeecccccccccccccCceEEeecCCCcHHHHHHHHHH
Confidence                     11223444444211              1124788888642 22223333444555555555556677777


Q ss_pred             HHHhcCCCCCHHHHHH-HHHhcCCCHHHHHHHHHH
Q 020071          182 VVQEEKVPYVPEGLEA-IIFTADGDMRQALNNLQA  215 (331)
Q Consensus       182 ~~~~~~~~i~~~~~~~-l~~~~~g~~r~~~~~l~~  215 (331)
                      .++++.+.++.+.+.. +...+++|++.+++.+..
T Consensus       298 i~~~~~l~~~~~~L~~li~~~s~~D~~~~i~~~~~  332 (362)
T d1svma_         298 LLEKRIIQSGIALLLMLIWYRPVAEFAQSIQSRIV  332 (362)
T ss_dssp             HHHTTCTTCHHHHHHHHHHHSCGGGSCGGGHHHHH
T ss_pred             HhcccCCCCCHHHHHHHccCCCHHHHHHHHHHHHH
Confidence            8888888877766544 446677788887776543

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.11  E-value=2.6e-10  Score=96.92  Aligned_cols=119  Identities=18%  Similarity=0.193  Sum_probs=77.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCC------hHhHHHHHHHHHhcccCCCCCCceEEEEeCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRG------IDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADS  122 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~------~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~  122 (331)
                      +|||||||||||.+|++++..+..   ..+++.+++++..+      ...+++.++....         ..|+||||+|.
T Consensus       126 ~l~~G~pG~GKT~la~ala~~~~~---~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~---------~~ilf~DEid~  193 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEALGG---KDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ---------HRVIVIDSLKN  193 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHHHHT---TSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH---------CSEEEEECCTT
T ss_pred             EEEECCCCccHHHHHHHHHHHhcC---CCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh---------ccEEEeehhhh
Confidence            678999999999999999999842   35677788776532      3455665555432         24999999999


Q ss_pred             CCH------------HHHHHHHHHHHH--hcCCcEEEEeeCCCCCCChhhhc------cc-ceeeecCCCHHHHHHHHH
Q 020071          123 MTA------------GAQQALRRTMEI--YSNSTRFALACNVSSKIIEPIQS------RC-AIVRFSRLSDEEILSRLM  180 (331)
Q Consensus       123 l~~------------~~~~~Ll~~le~--~~~~~~~I~~~~~~~~l~~~l~s------r~-~~i~~~~~~~~~~~~~l~  180 (331)
                      +..            ...+.|+.-|+.  ...++.+|.+|| +..+.+++..      |+ ..+.+.+|+.++-.+++.
T Consensus       194 ~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~~~v~viaatN-~~~~~~~i~~~~~r~~Rf~~~v~v~~pd~~~r~~il~  271 (321)
T d1w44a_         194 VIGAAGGNTTSGGISRGAFDLLSDIGAMAASRGCVVIASLN-PTSNDDKIVELVKEASRSNSTSLVISTDVDGEWQVLT  271 (321)
T ss_dssp             TC-----------CCHHHHHHHHHHHHHHHHHTCEEEEECC-CCCCCHHHHHHHHHHHHHSCSEEEEECSSTTEEEEEE
T ss_pred             hccccccCCCCCcchhhhhhhhhhccccccCCCeEEEEeCC-CcccccchhhhhhccCcccceeecCCCChHHHHHHHH
Confidence            843            224566666652  234567777776 5656565542      32 456777777666555443

>d1iqpa1 a.80.1.1 (A:233-327) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.09  E-value=1.2e-09  Score=76.02  Aligned_cols=91  Identities=23%  Similarity=0.434  Sum_probs=84.1

Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHH-HHcCCCHHHHHHHHHHHHHhcccChHhHHHHHHHHHHHHHHHhcCCCchHHH
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQL-YDLGYSPTDIITTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQL  314 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l-~~~g~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l  314 (331)
                      .++.+.++++.+.++++.++...+.++ ...|+++.+|+..+.+.+.+..+|+..+.+++..++++++++..|++++++|
T Consensus         3 ~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~v~~~~~~~~~k~~ll~~la~~d~rL~~G~~e~iQL   82 (95)
T d1iqpa1           3 RPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANEIIQL   82 (95)
T ss_dssp             CHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHGGGSSSCHHHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             CcHHHHHHHHHHHcCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHcCCChHHHH
Confidence            456788999999999999999999997 5679999999999999888878999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 020071          315 CGLLAKLSIVRE  326 (331)
Q Consensus       315 ~~l~~~l~~~~~  326 (331)
                      +.|+.+++.+-+
T Consensus        83 ~alla~~~~i~~   94 (95)
T d1iqpa1          83 EALLAQFTLIGK   94 (95)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhc
Confidence            999999997653

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.05  E-value=5.1e-09  Score=88.07  Aligned_cols=177  Identities=14%  Similarity=0.066  Sum_probs=105.7

Q ss_pred             ccccCHHHHHHHHHHHHcC-CC-Ce-EEEeCCCCccHHHHHHHHHHHhcCC-CCCC-ceEEeecCCCCChHhHHHHHHHH
Q 020071           26 DIVGNLDAVARLGIIARDG-NM-PN-LILAGPPGTGKTTSILALAHELLGP-NYRE-AVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~~-~~-~~-~ll~G~~G~GKt~la~~l~~~l~~~-~~~~-~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      +++|++..+..+..++.+. .. .. +.+||..|+|||++|+.+.+..... ...+ .++.++.........+...+...
T Consensus        21 ~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~  100 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDIL  100 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHH
T ss_pred             ceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHH
Confidence            4679999999998888642 22 22 6899999999999999998864321 1111 22333333222222222222111


Q ss_pred             Hhccc-----C-------------------CCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCCh
Q 020071          101 AQKKV-----T-------------------LPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIE  156 (331)
Q Consensus       101 ~~~~~-----~-------------------~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~  156 (331)
                      .....     .                   ...+++-++|+|++...  ...    +.+..  ..+++|+||.+. .+..
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~--~~~----~~~~~--~~srilvTTR~~-~v~~  171 (277)
T d2a5yb3         101 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE--ETI----RWAQE--LRLRCLVTTRDV-EISN  171 (277)
T ss_dssp             HHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH--HHH----HHHHH--TTCEEEEEESBG-GGGG
T ss_pred             HHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHH--hhh----hhhcc--cCceEEEEeehH-HHHH
Confidence            11000     0                   00245679999998742  222    22322  356777777644 4445


Q ss_pred             hhhcccceeeecCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHhcCCCHHHHHH
Q 020071          157 PIQSRCAIVRFSRLSDEEILSRLMVVVQEEKV-PYVPEGLEAIIFTADGDMRQALN  211 (331)
Q Consensus       157 ~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~-~i~~~~~~~l~~~~~g~~r~~~~  211 (331)
                      .+...+..+.+.+++.++..+.+...+..... .-.++..+.+++.++|.|-.+.-
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~  227 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMM  227 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHH
Confidence            55666778999999999999999765432221 11245568899999999865443

>d1sxjc1 a.80.1.1 (C:239-333) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.97  E-value=6.8e-09  Score=72.16  Aligned_cols=92  Identities=20%  Similarity=0.401  Sum_probs=82.5

Q ss_pred             CCHHHHHHHHHHHHcCCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHhcccC-hHhHHHHHHHHHHHHHHHhcCCCchH
Q 020071          235 PHPLHVKNMVRNVLEGKFDDACSGLKQLY-DLGYSPTDIITTLFRIIKNYEMA-EHLKLEFMKEAGFAHMRICDGVGSYL  312 (331)
Q Consensus       235 ~~~~~i~~l~~~~~~~~~~~~~~~l~~l~-~~g~~~~~i~~~l~~~~~~~~~~-~~~~~~~~~~l~~~~~~l~~~~~~~l  312 (331)
                      ++++.+.++++.+.++++.+|...+.+++ ..|+++.+|+..+.+.+.....+ ...+..++..++++++|+..|+++++
T Consensus         1 P~P~~I~~il~~~l~~~f~~a~~~l~~l~~~~G~s~~dIl~~l~~~i~~~~~~~~~~k~~ll~~la~~e~rL~~G~~e~l   80 (95)
T d1sxjc1           1 PRPSDLKAVLKSILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGGNDQI   80 (95)
T ss_dssp             CCHHHHHHHHHHHHTSCHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHHHHTTCCCHHH
T ss_pred             CCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHcCCCcHH
Confidence            35677889999999999999999999986 56999999999999998887754 56678999999999999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 020071          313 QLCGLLAKLSIVRE  326 (331)
Q Consensus       313 ~l~~l~~~l~~~~~  326 (331)
                      +|..|+..+++..+
T Consensus        81 QL~~lla~~~~~~e   94 (95)
T d1sxjc1          81 QGSAVIGAIKASFE   94 (95)
T ss_dssp             HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999987654

>d1sxjd1 a.80.1.1 (D:263-353) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.96  E-value=4.1e-09  Score=72.71  Aligned_cols=88  Identities=20%  Similarity=0.277  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH-HhcccChHhHHHHHHHHHHHHHHHhcCCCchHHHH
Q 020071          237 PLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRII-KNYEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLC  315 (331)
Q Consensus       237 ~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~-~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~  315 (331)
                      ++.+.++++.+.++++.++...+.+++..|++..+|+..+++.+ ....+|+..+.+++..+++++.|+..|++++++|.
T Consensus         3 ~~~i~~il~~~~~~~f~~a~~~i~~l~~~Gys~~dIl~~l~~~vv~~~~i~~~~k~~i~~~la~~d~rL~~G~~e~lQL~   82 (91)
T d1sxjd1           3 HDILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLFTTDSRLNNGTNEHIQLL   82 (91)
T ss_dssp             SHHHHHHHHHHHSCCHHHHHHHHHHHHHTSCCCTTHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTTCCCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHcCCChHHHHH
Confidence            35678899999999999999999999999999999999999864 44558999999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 020071          316 GLLAKLSIV  324 (331)
Q Consensus       316 ~l~~~l~~~  324 (331)
                      .++.+++++
T Consensus        83 ~lla~i~~i   91 (91)
T d1sxjd1          83 NLLVKISQL   91 (91)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHcC
Confidence            999999863

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=98.88  E-value=4.1e-08  Score=87.47  Aligned_cols=56  Identities=29%  Similarity=0.473  Sum_probs=44.7

Q ss_pred             ccccCHHHHHHHHHHHHc--------C------CCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           26 DIVGNLDAVARLGIIARD--------G------NMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        26 ~~ig~~~~~~~l~~~l~~--------~------~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      -+|||+++++.+.-++.+        .      ..+|+|+.||+|||||.+|+.+|+.+     +.||+.++++.
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l-----~VPFv~~daT~   84 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA-----NAPFIKVEATK   84 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT-----TCCEEEEEGGG
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHh-----CCCEEEeecce
Confidence            379999999988766632        1      13359999999999999999999998     77787776643

>d1sxjb1 a.80.1.1 (B:231-322) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.82  E-value=3.2e-08  Score=68.09  Aligned_cols=88  Identities=47%  Similarity=0.818  Sum_probs=76.2

Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHH-HHHcCCCHHHHHHHHHHHHHhc-ccChHhHHHHHHHHHHHHHHHhcCCCchHH
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQ-LYDLGYSPTDIITTLFRIIKNY-EMAEHLKLEFMKEAGFAHMRICDGVGSYLQ  313 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~-l~~~g~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~  313 (331)
                      ++..+.+++   ..+++.+|+..+.+ ++..|++..+|+..+++.+... .+++..+.+++..++++++|+..|++++++
T Consensus         2 ~P~~I~~il---~~~~f~~a~~~l~~~l~~~Gys~~DIi~~l~~~i~~~~~~~e~~k~~il~~la~~~~rl~~G~~e~lQ   78 (92)
T d1sxjb1           2 HPLIVKKML---LASNLEDSIQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQ   78 (92)
T ss_dssp             CHHHHHHHH---SCSSHHHHHHHHHHTTTTTTCCHHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHHHHHHTTCCCHHH
T ss_pred             CHHHHHHHH---HhCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcCCCcHHH
Confidence            344555553   57789999999988 5578999999999999999886 478889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 020071          314 LCGLLAKLSIVRE  326 (331)
Q Consensus       314 l~~l~~~l~~~~~  326 (331)
                      |..|+.+++++..
T Consensus        79 L~~lla~i~~i~~   91 (92)
T d1sxjb1          79 LASMLAKIHKLNN   91 (92)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998753

>d1jqlb_ c.37.1.20 (B:) delta 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 subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.59  E-value=1.3e-07  Score=70.58  Aligned_cols=125  Identities=10%  Similarity=0.021  Sum_probs=91.6

Q ss_pred             HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEE
Q 020071           36 RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVV  115 (331)
Q Consensus        36 ~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vv  115 (331)
                      .|.+.++++-.|-++|||++..-+..+...+.+.+..++.........    .....+.+.+..+.+.++   ++++++|
T Consensus         8 ~L~~~l~k~l~~vyll~G~E~~L~~~~~~~i~~~~~~~~~~~~~~~~~----~~~~~~~~l~~~~~t~sl---F~~krli   80 (140)
T d1jqlb_           8 QLRAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSI----DPNTDWNAIFSLCQAMSL---FASRQTL   80 (140)
T ss_dssp             GHHHHHHHCCCSEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEECCCC----STTCCHHHHHHHHHCCCT---TCCCEEE
T ss_pred             HHHHHHhcCCCcEEEEEcChHHHHHHHHHHHHHHHHhCCcceeeeecc----cccCCHHHHHHHHcCCCc---ccCcEEE
Confidence            466677766434369999999999999999988876543332221111    122357788888888887   8999999


Q ss_pred             EEeCCCCC-CHHHHHHHHHHHHHhcCCcEEEEeeCCC------CCCChhhhcccceeee
Q 020071          116 VLDEADSM-TAGAQQALRRTMEIYSNSTRFALACNVS------SKIIEPIQSRCAIVRF  167 (331)
Q Consensus       116 iide~d~l-~~~~~~~Ll~~le~~~~~~~~I~~~~~~------~~l~~~l~sr~~~i~~  167 (331)
                      +|++++.. ++...+.|.++++.|++++.+|+.++..      .++.+++.+++.++.+
T Consensus        81 ~i~~~~~~~~k~~~~~L~~~~~~~~~~~~lii~~~~~~k~~~~~k~~K~l~k~g~vI~C  139 (140)
T d1jqlb_          81 LLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTC  139 (140)
T ss_dssp             EEECCTTCSCTTHHHHHHHHHHHCCSSCCEEEECSSCCTTGGGSHHHHHHGGGCEEEEC
T ss_pred             EEEcCCCCCcHHHHHHHHHHHhCCCCCEEEEEEcCCCCchhhhhHHHHHHHhCCeEEeC
Confidence            99998755 4666788999999999999999987653      3456777777777765

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=98.39  E-value=1.4e-06  Score=67.74  Aligned_cols=116  Identities=21%  Similarity=0.281  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHcCCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCC
Q 020071           33 AVARLGIIARDGNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGK  111 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~  111 (331)
                      .+..|+.++++..-.+ ++|+||+++|||.++.++.+-+.     ..++.++....           .+.-.+    ..+
T Consensus        39 Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~-----G~vis~~N~~s-----------~F~Lq~----l~~   98 (205)
T d1tuea_          39 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ-----GAVISFVNSTS-----------HFWLEP----LTD   98 (205)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT-----CEECCCCCSSS-----------CGGGGG----GTT
T ss_pred             HHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhC-----CEEEeccCCCC-----------Cccccc----ccC
Confidence            3456677775432223 89999999999999999999883     22222221111           011112    245


Q ss_pred             ceEEEEeCCCCCCHHHHHH-HHHHHHHhc-------------CCcEEEEeeCCC---CCCChhhhcccceeeec
Q 020071          112 HKVVVLDEADSMTAGAQQA-LRRTMEIYS-------------NSTRFALACNVS---SKIIEPIQSRCAIVRFS  168 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~-Ll~~le~~~-------------~~~~~I~~~~~~---~~l~~~l~sr~~~i~~~  168 (331)
                      .+++++||+......-.+. +..+++.-+             .-..+|+++|..   ..-.+.|.+|..++.|+
T Consensus        99 ~kv~l~dD~t~~~~~~~d~~lK~ll~G~~vsvd~KhK~~vqi~~pPliITsN~~~~~~d~~~~L~sRi~~f~F~  172 (205)
T d1tuea_          99 TKVAMLDDATTTCWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRITVFEFP  172 (205)
T ss_dssp             CSSEEEEEECHHHHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSCEEEECC
T ss_pred             CeEEEEeccccchHHHHHHHHHhccCCCeeeeecccCCcccccCCCEEEEcCCCCCccccchhhhheEEEEECC
Confidence            7899999986654443344 455665211             123477787763   34457899999999887

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.35  E-value=2.9e-07  Score=71.46  Aligned_cols=25  Identities=36%  Similarity=0.624  Sum_probs=22.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcC
Q 020071           48 NLILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ++++.||+|+||||+++.++..+..
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            4899999999999999999998853

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=98.24  E-value=3e-07  Score=76.44  Aligned_cols=57  Identities=23%  Similarity=0.305  Sum_probs=39.6

Q ss_pred             CCccccCHHHHHHHHHHHHc---CCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           24 VCDIVGNLDAVARLGIIARD---GNMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        24 ~~~~ig~~~~~~~l~~~l~~---~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      |.|.-+++.....+......   ...|. +||+||||+|||++|++++..+     ..+++.++++
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~-----~~~~~~i~~d   66 (273)
T d1gvnb_           6 FTDKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEET-----QGNVIVIDND   66 (273)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHT-----TTCCEEECTH
T ss_pred             cChHHHHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHh-----hcceEEEecH
Confidence            33444445555555555433   34445 8999999999999999999998     5567777753

>d1jr3d1 a.80.1.1 (D:212-338) delta subunit {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: delta subunit
species: Escherichia coli [TaxId: 562]

Probab=98.07  E-value=7e-06  Score=59.71  Aligned_cols=84  Identities=20%  Similarity=0.151  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-------------------c---------------
Q 020071          239 HVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY-------------------E---------------  284 (331)
Q Consensus       239 ~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~-------------------~---------------  284 (331)
                      ++|++++++..+|...++..+.+|...|++|..++..+.+..+.+                   +               
T Consensus         2 ~~F~L~dai~~gd~~~a~~il~~l~~~g~~~~~il~~l~~~~~~l~~i~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   81 (127)
T d1jr3d1           2 TPFHWVDALLMGKSKRALHILQQLRLEGSEPVILLRTLQRELLLLVNLKRQSAHTPLRALFDKHRVWQNRRGMMGEALNR   81 (127)
T ss_dssp             CHHHHHHHHTTSCHHHHHHHHTSSTTTTCCHHHHHHHHHHHHHHHHHHHTCSSSSCHHHHHHHHTCCSSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHcCCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHcCCCHHHHHHHHHHHHh
Confidence            479999999999999999999999999999999998887644431                   1               


Q ss_pred             cChHhHHHHHHHHHHHHHHHhcC--CCchHHHHHHHHHHH
Q 020071          285 MAEHLKLEFMKEAGFAHMRICDG--VGSYLQLCGLLAKLS  322 (331)
Q Consensus       285 ~~~~~~~~~~~~l~~~~~~l~~~--~~~~l~l~~l~~~l~  322 (331)
                      ++...+.+++..+.++|..+|.+  .++...||.+++++|
T Consensus        82 ~s~~~l~~~l~~l~~~D~~~K~~~~~~~~~~le~l~l~lc  121 (127)
T d1jr3d1          82 LSQTQLRQAVQLLTRTELTLKQDYGQSVWAELEGLSLLLC  121 (127)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHSSCSCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Confidence            23333359999999999999954  477899999999998

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.00  E-value=6.4e-06  Score=63.69  Aligned_cols=27  Identities=41%  Similarity=0.637  Sum_probs=23.9

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      .|++|+||+|+|||++++.+++.+...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            369999999999999999999998543

>d1jr3a1 a.80.1.1 (A:243-368) gamma subunit {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: gamma subunit
species: Escherichia coli [TaxId: 562]

Probab=97.95  E-value=7.6e-05  Score=53.91  Aligned_cols=93  Identities=4%  Similarity=0.009  Sum_probs=78.5

Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhc------c--------------------cChHh
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKNY------E--------------------MAEHL  289 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~~------~--------------------~~~~~  289 (331)
                      ..+.++++++++.++|..+++..++++...|.++..++..+..+++++      +                    ++...
T Consensus         3 D~~~~~~L~~~I~~~d~~~~L~~l~~i~~~G~d~~~~l~~L~~~~r~l~~~k~~~~~~~~~~~~~~~~~~~~a~~~~~~~   82 (126)
T d1jr3a1           3 DDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPAALGNDMAAIELRMRELARTIPPTD   82 (126)
T ss_dssp             CHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHTTCTTCCCSGGGGTHHHHHHHHHHSCHHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhcccccccchHHHHHHHHHHHHcCCHHH
Confidence            346789999999999999999999999999999999999888766642      0                    23344


Q ss_pred             HHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhhh
Q 020071          290 KLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVRETA  328 (331)
Q Consensus       290 ~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~~~~  328 (331)
                      +..+++.+.++...++...++++.+|..++|+.......
T Consensus        83 L~~~~~il~~~~~~ik~s~~~r~~~Em~llrll~~~~~~  121 (126)
T d1jr3a1          83 IQLYYQTLLIGRKELPYAPDRRMGVEMTLLRALAFHPRM  121 (126)
T ss_dssp             HHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHTCSSS
T ss_pred             HHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCCC
Confidence            568899999999999999999999999999987655443

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=97.92  E-value=2.1e-05  Score=57.78  Aligned_cols=39  Identities=18%  Similarity=0.276  Sum_probs=26.1

Q ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHHH--hcCCcEEEEee
Q 020071          110 GKHKVVVLDEADSMTAGAQQALRRTMEI--YSNSTRFALAC  148 (331)
Q Consensus       110 ~~~~vviide~d~l~~~~~~~Ll~~le~--~~~~~~~I~~~  148 (331)
                      .+..+|||||+|.+..+....+...++.  +.+...+++.|
T Consensus        93 ~~~~~vIiDE~H~~~~~~~~~~~~~l~~~~~~~~~~~l~~T  133 (136)
T d1a1va1          93 GAYDIIICDECHSTDATSILGIGTVLDQAETAGARLVVLAT  133 (136)
T ss_dssp             CCCSEEEEETTTCCSHHHHHHHHHHHHHTTTTTCSEEEEEE
T ss_pred             hcCCEEEEecccccCHHHHHHHHHHHHHHHHCCCCcEEEEe
Confidence            4578999999999988776666666653  22344444443

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.91  E-value=3.1e-05  Score=61.22  Aligned_cols=91  Identities=21%  Similarity=0.251  Sum_probs=51.2

Q ss_pred             CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCC----------------
Q 020071           45 NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTL----------------  107 (331)
Q Consensus        45 ~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~----------------  107 (331)
                      ..|+ ++|.||+|+||||.+-.+|..+...+...-++..+.......++++..-+... .++..                
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~-i~~~~~~~~~d~~~~~~~~~~   87 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVG-ATVISHSEGADPAAVAFDAVA   87 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHT-CEEECCSTTCCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhcC-ccccccCCCCcHHHHHHHHHH
Confidence            4466 69999999999999888888876554444444444332222233332211111 00000                


Q ss_pred             --CCCCceEEEEeCCCCCCHH--HHHHHHHHHH
Q 020071          108 --PPGKHKVVVLDEADSMTAG--AQQALRRTME  136 (331)
Q Consensus       108 --~~~~~~vviide~d~l~~~--~~~~Ll~~le  136 (331)
                        ...++.+|+||=+.+.+.+  ..+.|.++.+
T Consensus        88 ~~~~~~~d~ilIDTaGr~~~d~~~~~el~~~~~  120 (213)
T d1vmaa2          88 HALARNKDVVIIDTAGRLHTKKNLMEELRKVHR  120 (213)
T ss_dssp             HHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHH
T ss_pred             HHHHcCCCEEEEeccccccchHHHHHHHHHHHh
Confidence              0234679999998877543  3455555554

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.91  E-value=2.3e-05  Score=60.20  Aligned_cols=82  Identities=16%  Similarity=0.125  Sum_probs=49.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCCHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQ  128 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~~~~~  128 (331)
                      ++++|+||+||||+|+.++...     +  +..++..+........+.+.....        .+..||+|... ......
T Consensus        17 iil~G~pGsGKST~a~~l~~~~-----~--~~~i~~D~~~~~~~~~~~~~~~l~--------~g~~vIiD~t~-~~~~~R   80 (172)
T d1yj5a2          17 VVAVGFPGAGKSTFIQEHLVSA-----G--YVHVNRDTLGSWQRCVSSCQAALR--------QGKRVVIDNTN-PDVPSR   80 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHTGGG-----T--CEEEEHHHHCSHHHHHHHHHHHHH--------TTCCEEEESCC-CSHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----C--CEEEchHHHHHHHHHHHHHHHHHH--------CCCCceeeCcC-CCHHHH
Confidence            6999999999999999887654     3  344444333333333333333322        24567788654 456666


Q ss_pred             HHHHHHHHHhcCCcEEEE
Q 020071          129 QALRRTMEIYSNSTRFAL  146 (331)
Q Consensus       129 ~~Ll~~le~~~~~~~~I~  146 (331)
                      ..+....++..-.+.+|.
T Consensus        81 ~~~~~~a~~~~~~~~~v~   98 (172)
T d1yj5a2          81 ARYIQCAKDAGVPCRCFN   98 (172)
T ss_dssp             HHHHHHHHHHTCCEEEEE
T ss_pred             HHHHHHHHhcCCCEEEEE
Confidence            777777776554444443

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=97.90  E-value=2.8e-05  Score=66.91  Aligned_cols=118  Identities=16%  Similarity=0.195  Sum_probs=62.5

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCC--CCCCceEEeecCCCCChHhHHHHHHHHHhc-c--
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP--NYREAVMELNASDDRGIDVVRNKIKMFAQK-K--  104 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~--~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~-~--  104 (331)
                      .+.....+...+.+   +-.+++||||||||+++..+...+...  ..+..+.-.. +.....+.+.+.+...... .  
T Consensus       150 ~~~Q~~A~~~al~~---~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~A-pTgkAA~~L~e~~~~~~~~~~~~  225 (359)
T d1w36d1         150 INWQKVAAAVALTR---RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAA-PTGKAAARLTESLGKALRQLPLT  225 (359)
T ss_dssp             CCHHHHHHHHHHTB---SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEB-SSHHHHHHHHHHHTHHHHHSSCC
T ss_pred             ccHHHHHHHHHHcC---CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEec-CcHHHHHHHHHHHHHHHhhcCch
Confidence            34455556666643   236999999999999887765554321  1122222222 2211122222222111000 0  


Q ss_pred             --------------------------c---CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCC
Q 020071          105 --------------------------V---TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKII  155 (331)
Q Consensus       105 --------------------------~---~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~  155 (331)
                                                +   .....+..++||||+..++.....   .++...+.++++|++.+ +..|+
T Consensus       226 ~~~~~~~~~~~~t~~~ll~~~~~~~~~~~~~~~~l~~d~lIIDEaSmv~~~l~~---~ll~~~~~~~~lILvGD-~~QLp  301 (359)
T d1w36d1         226 DEQKKRIPEDASTLHRLLGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMS---RLIDALPDHARVIFLGD-RDQLA  301 (359)
T ss_dssp             SCCCCSCSCCCBTTTSCC-----------CTTSCCSCSEEEECSGGGCBHHHHH---HHHHTCCTTCEEEEEEC-TTSGG
T ss_pred             hhhhhhhhhhhhHHHHHHhhhhcchHHHHhhhcccccceeeehhhhccCHHHHH---HHHHHhcCCCEEEEECC-hhhcc
Confidence                                      0   000123579999999998876544   44444567789999874 44443

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.89  E-value=7.1e-05  Score=55.70  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++++|+||+||||+|+.+.+..
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6899999999999999988765

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=97.86  E-value=4.3e-05  Score=62.79  Aligned_cols=112  Identities=16%  Similarity=0.115  Sum_probs=68.5

Q ss_pred             HHHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCc
Q 020071           35 ARLGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKH  112 (331)
Q Consensus        35 ~~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~  112 (331)
                      ..+..++.++....  ++|+||+++|||+++..+.+.+     +. +..++.....           +.-.+    -.+.
T Consensus        91 ~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l-----g~-~~~~~~~~~~-----------f~l~~----l~~k  149 (267)
T d1u0ja_          91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV-----PF-YGCVNWTNEN-----------FPFND----CVDK  149 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS-----SC-EEECCTTCSS-----------CTTGG----GSSC
T ss_pred             HHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh-----cc-hhhccccCCC-----------ccccc----cCCC
Confidence            45566665543333  7999999999999999999987     21 2222222110           00111    2468


Q ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHH--------------hcCCcEEEEeeCCCCC----------CChhhhcccceeeec
Q 020071          113 KVVVLDEADSMTAGAQQALRRTMEI--------------YSNSTRFALACNVSSK----------IIEPIQSRCAIVRFS  168 (331)
Q Consensus       113 ~vviide~d~l~~~~~~~Ll~~le~--------------~~~~~~~I~~~~~~~~----------l~~~l~sr~~~i~~~  168 (331)
                      +++++||+..-. ...+.+..++..              ..+...+|+++|+...          -...+++|...+.|.
T Consensus       150 ~~~~~~e~~~~~-~~~~~~K~l~gGd~i~v~~K~k~~~~~~~~p~li~s~n~i~~~~~~~~~~~~~~~~l~~R~~~~~F~  228 (267)
T d1u0ja_         150 MVIWWEEGKMTA-KVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMFKFELT  228 (267)
T ss_dssp             SEEEECSCCEET-TTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHTTEEEEECC
T ss_pred             EEEEEeCCCccc-cHHHHHHHhcCCCceEeecccCCCcEeeCCeEEEEeCCCcccccCCCccccccchHhhhhEEEEECC
Confidence            899999986543 334556666542              1234567777766543          246899998887665

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.85  E-value=4.4e-05  Score=60.15  Aligned_cols=32  Identities=34%  Similarity=0.529  Sum_probs=25.9

Q ss_pred             CCCCe-EEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           44 GNMPN-LILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        44 ~~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      ++.|+ ++|.||+|+||||.+-.+|..+..++.
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~   38 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQGK   38 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTTTC
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            45577 589999999999999999988765543

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.83  E-value=5.5e-06  Score=63.42  Aligned_cols=31  Identities=39%  Similarity=0.590  Sum_probs=26.6

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           46 MPNLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .|.++|.||||+||||+++.+++.+     +.+++.
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~l-----~~~~i~   34 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASKS-----GLKYIN   34 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH-----CCEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH-----CCcEEe
Confidence            4668999999999999999999998     555554

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.80  E-value=0.00011  Score=57.76  Aligned_cols=101  Identities=15%  Similarity=0.141  Sum_probs=54.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccC-C-----------------CCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVT-L-----------------PPG  110 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~-~-----------------~~~  110 (331)
                      ++|.||+|+||||.+-.+|..+...+....++..+.......++++..-+... .++. .                 ...
T Consensus         9 i~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~-i~~~~~~~~~d~~~~~~~~~~~~~~~   87 (207)
T d1okkd2           9 VLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLS-IPVIQGPEGTDPAALAYDAVQAMKAR   87 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHT-CCEECCCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccC-ceEEeccCCccHHHHHHHHHHHHHHC
Confidence            69999999999999888988876554433333333333333333333221111 1100 0                 012


Q ss_pred             CceEEEEeCCCCCCH--HHHHHHHHHHHH-------hcCCcEEEEeeCC
Q 020071          111 KHKVVVLDEADSMTA--GAQQALRRTMEI-------YSNSTRFALACNV  150 (331)
Q Consensus       111 ~~~vviide~d~l~~--~~~~~Ll~~le~-------~~~~~~~I~~~~~  150 (331)
                      ++.+|+||=+.+...  +....|.++.+.       .|..+.+++.++.
T Consensus        88 ~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~  136 (207)
T d1okkd2          88 GYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVT  136 (207)
T ss_dssp             TCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTB
T ss_pred             CCCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeeccc
Confidence            467999999987753  334444444432       2345555655443

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=97.76  E-value=1.8e-05  Score=58.07  Aligned_cols=39  Identities=13%  Similarity=0.115  Sum_probs=24.3

Q ss_pred             CCCceEEEEeCCCCCCHHHHH--HHHHHHHHhcCCcEEEEee
Q 020071          109 PGKHKVVVLDEADSMTAGAQQ--ALRRTMEIYSNSTRFALAC  148 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~~~~--~Ll~~le~~~~~~~~I~~~  148 (331)
                      ..+..+||+||+|.+++....  .+...+...+ ++.+|+.|
T Consensus        96 ~~~~~lvIiDEaH~~~~~~~~~~~~~~~~~~~~-~~~~l~lT  136 (140)
T d1yksa1          96 VVNWEVIIMDEAHFLDPASIAARGWAAHRARAN-ESATILMT  136 (140)
T ss_dssp             CCCCSEEEETTTTCCSHHHHHHHHHHHHHHHTT-SCEEEEEC
T ss_pred             ccceeEEEEccccccChhhHHHHHHHHHHhhCC-CCCEEEEE
Confidence            456889999999999766432  3334443333 45555544

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.74  E-value=1.1e-05  Score=61.05  Aligned_cols=29  Identities=38%  Similarity=0.575  Sum_probs=25.4

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      +++|.||+|+||||+++.+++.+     +.+++.
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L-----~~~~id   32 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQL-----NMEFYD   32 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT-----TCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh-----CCCeEe
Confidence            58999999999999999999999     555654

>d1sxje1 a.80.1.1 (E:256-354) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.71  E-value=0.00041  Score=46.83  Aligned_cols=74  Identities=15%  Similarity=0.118  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Q 020071          252 FDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGLLAKLSIVR  325 (331)
Q Consensus       252 ~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l~~~l~~~~  325 (331)
                      ..+.+..+++|+..+.+|..|+..+...... .+.+...+.+++...+.++.|++.|..+..+||.|+.+++.++
T Consensus        24 L~~iR~~lYeLL~~cIpp~~Ilk~L~~~Ll~~~~~d~~lk~eii~~aa~yE~Rl~~GsK~IfHLEaFvAkfM~~l   98 (99)
T d1sxje1          24 LIECRAVLYDLLAHCIPANIILKELTFSLLDVETLNTTNKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCCL   98 (99)
T ss_dssp             HHHHHHHHHHHHTTTCCHHHHHHHHHHTTTTCTTSCHHHHHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhhc
Confidence            3456778889999999999999888654422 2356777889999999999999999999999999999999876

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.69  E-value=6.3e-05  Score=59.41  Aligned_cols=111  Identities=16%  Similarity=0.176  Sum_probs=62.6

Q ss_pred             cccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhccc-
Q 020071           27 IVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKV-  105 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~-  105 (331)
                      +--++...+.+..++.++   +.++.+|+|+|||.++..++..+.     ..++.+.+.. .-.+++.+.++.+..... 
T Consensus        69 ~~Lr~yQ~eav~~~~~~~---~~ll~~~tG~GKT~~a~~~~~~~~-----~~~Liv~p~~-~L~~q~~~~~~~~~~~~~~  139 (206)
T d2fz4a1          69 ISLRDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINELS-----TPTLIVVPTL-ALAEQWKERLGIFGEEYVG  139 (206)
T ss_dssp             CCCCHHHHHHHHHHTTTS---EEEEEESSSTTHHHHHHHHHHHSC-----SCEEEEESSH-HHHHHHHHHHGGGCGGGEE
T ss_pred             CCcCHHHHHHHHHHHhCC---CcEEEeCCCCCceehHHhHHHHhc-----CceeEEEccc-chHHHHHHHHHhhcccchh
Confidence            445666777777666443   468889999999999988888773     2233222211 111222222221111000 


Q ss_pred             ------------------------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          106 ------------------------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       106 ------------------------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                                              .....+..+||+||+|.+..+   .+.++++..+...++.++++
T Consensus       140 ~~~~~~~~~~~i~i~t~~~~~~~~~~~~~~~~lvIiDEaH~~~a~---~~~~i~~~~~~~~~lgLTAT  204 (206)
T d2fz4a1         140 EFSGRIKELKPLTVSTYDSAYVNAEKLGNRFMLLIFDEVHHLPAE---SYVQIAQMSIAPFRLGLTAT  204 (206)
T ss_dssp             EESSSCBCCCSEEEEEHHHHHHTHHHHTTTCSEEEEECSSCCCTT---THHHHHHTCCCSEEEEEEES
T ss_pred             hcccccccccccccceehhhhhhhHhhCCcCCEEEEECCeeCCcH---HHHHHHhccCCCcEEEEecC
Confidence                                    000245679999999999744   34555665555556666654

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.69  E-value=1.2e-05  Score=61.24  Aligned_cols=32  Identities=34%  Similarity=0.583  Sum_probs=27.6

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      |.++|.|++|+||||+++.+++.+     +.+|++.+
T Consensus         2 p~IvliG~~G~GKSTig~~La~~l-----~~~fiD~D   33 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKAL-----GVGLLDTD   33 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH-----TCCEEEHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHh-----CCCeEeec
Confidence            568888999999999999999999     77777543

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.68  E-value=0.00012  Score=57.75  Aligned_cols=103  Identities=17%  Similarity=0.284  Sum_probs=51.9

Q ss_pred             CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHH--------------------HHHHHhc
Q 020071           45 NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNK--------------------IKMFAQK  103 (331)
Q Consensus        45 ~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~--------------------i~~~~~~  103 (331)
                      +.|+ ++|.||+|+||||.+-.+|..+...+....++..+.......++++..                    +......
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a~~~   89 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEK   89 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHHHHH
Confidence            4567 589999999999998888887765444433344333222222222221                    1111111


Q ss_pred             ccCCCCCCceEEEEeCCCCCCHH----HHHHHHHHHHHhcC-CcEEEEeeCC
Q 020071          104 KVTLPPGKHKVVVLDEADSMTAG----AQQALRRTMEIYSN-STRFALACNV  150 (331)
Q Consensus       104 ~~~~~~~~~~vviide~d~l~~~----~~~~Ll~~le~~~~-~~~~I~~~~~  150 (331)
                      ..   ..+..+|+||=+.+.+.+    ..+.|.++.+...+ .+.+++.++.
T Consensus        90 ~~---~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~  138 (211)
T d1j8yf2          90 FL---SEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASI  138 (211)
T ss_dssp             HH---HTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGG
T ss_pred             hh---ccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEeccc
Confidence            00   234689999988775322    23455556654433 4455555443

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.66  E-value=4.3e-05  Score=58.38  Aligned_cols=30  Identities=27%  Similarity=0.344  Sum_probs=26.2

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      +++|.|++|+||||+++.+++.+     +.+++..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L-----g~~~id~   33 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL-----GYEFVDT   33 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH-----TCEEEEH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh-----CCCEEeh
Confidence            47888999999999999999999     7777753

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.66  E-value=0.0002  Score=56.25  Aligned_cols=99  Identities=19%  Similarity=0.207  Sum_probs=52.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCC------------------CCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTL------------------PPG  110 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~------------------~~~  110 (331)
                      ++|.||+|+||||.+-.+|..+...+...-++..+.......++++..-+... .++..                  ...
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~-v~~~~~~~~~~~~~~~~~~~~~~~~~   91 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVG-VPVLEVMDGESPESIRRRVEEKARLE   91 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHT-CCEEECCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcC-CccccccccchhhHHHHHHHHHHhhc
Confidence            58999999999999999998886554433233322221111122221111100 00000                  013


Q ss_pred             CceEEEEeCCCCCC--HHHHHHHHHHHHHhcC-CcEEEEee
Q 020071          111 KHKVVVLDEADSMT--AGAQQALRRTMEIYSN-STRFALAC  148 (331)
Q Consensus       111 ~~~vviide~d~l~--~~~~~~Ll~~le~~~~-~~~~I~~~  148 (331)
                      +..+|+||=+.+..  ....+.|.++.+...+ .+.+++.+
T Consensus        92 ~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a  132 (207)
T d1ls1a2          92 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDA  132 (207)
T ss_dssp             TCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEG
T ss_pred             cCcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEecc
Confidence            45789999887764  3455666666665443 33344433

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.59  E-value=0.00014  Score=56.65  Aligned_cols=22  Identities=27%  Similarity=0.623  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.||||+||||+|+.+++.+
T Consensus         9 I~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           9 VFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6999999999999999999988

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.58  E-value=3e-05  Score=59.04  Aligned_cols=26  Identities=31%  Similarity=0.538  Sum_probs=23.1

Q ss_pred             CCCe-EEEeCCCCccHHHHHHHHHHHh
Q 020071           45 NMPN-LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        45 ~~~~-~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ..++ ++|+|++|+||||+++.+++.+
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3456 6999999999999999999998

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.57  E-value=2e-05  Score=60.79  Aligned_cols=23  Identities=22%  Similarity=0.351  Sum_probs=21.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.||+|+||||+|+.|++.+
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999999998

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.52  E-value=2.9e-05  Score=58.83  Aligned_cols=30  Identities=33%  Similarity=0.497  Sum_probs=26.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEe
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMEL   82 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~   82 (331)
                      +++|.|++|+||||+++.+++.+     +.+|+..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l-----~~~~~d~   31 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDL-----DLVFLDS   31 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH-----TCEEEEH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh-----CCCEEec
Confidence            47888999999999999999999     7777754

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.46  E-value=9.2e-05  Score=58.33  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=22.9

Q ss_pred             Ce-EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           47 PN-LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        47 ~~-~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      |. ++++|.||+||||+|+.+++.+..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            45 699999999999999999998853

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=4.9e-05  Score=59.13  Aligned_cols=25  Identities=40%  Similarity=0.509  Sum_probs=22.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ++|+|+||+||||+|+.+++.+...
T Consensus        22 I~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          22 VWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhc
Confidence            5899999999999999999998544

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.40  E-value=6.1e-05  Score=57.08  Aligned_cols=36  Identities=33%  Similarity=0.434  Sum_probs=28.3

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           46 MPNLILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      .|.+.|+|++|+||||+++.+++.+...+....++.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~   37 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK   37 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEec
Confidence            466899999999999999999999865544433333

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.38  E-value=7e-05  Score=57.10  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+|++|+||||+|+.+++.+
T Consensus         6 I~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7999999999999999999998

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.38  E-value=4.1e-05  Score=58.50  Aligned_cols=31  Identities=35%  Similarity=0.521  Sum_probs=26.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      ++|.||+|+||||+++.+++.+     +.+++.++.
T Consensus         7 I~l~G~~GsGKSTia~~La~~l-----g~~~~~~~~   37 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANLP-----GVPKVHFHS   37 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTCS-----SSCEEEECT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh-----CCCEEEecH
Confidence            6999999999999999999987     666776654

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.37  E-value=5.6e-05  Score=57.45  Aligned_cols=22  Identities=45%  Similarity=0.777  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|+||||+||||+|+.+++.+
T Consensus         5 I~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6999999999999999999987

>d3ctda1 a.80.1.2 (A:258-420) Uncharacterized protein YrvN {Prochlorococcus marinus [TaxId: 1219]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: MgsA/YrvN C-terminal domain-like
domain: Uncharacterized protein YrvN
species: Prochlorococcus marinus [TaxId: 1219]

Probab=97.36  E-value=0.0016  Score=48.27  Aligned_cols=51  Identities=16%  Similarity=0.166  Sum_probs=45.6

Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccC
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMA  286 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~  286 (331)
                      +++.+..+.+++.+.|.+.|+.|+..|+..|++|..|.+.|.+++.+ +|+.
T Consensus         2 HYd~iSA~~KSiRgSD~dAAly~larml~~Gedp~~i~RRli~~AsEDIGlA   53 (163)
T d3ctda1           2 HFDVISAFIKSIRGSDPDATLYWLANMVEAGEDPNFIFRRLLISACEDIGLA   53 (163)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTGGG
T ss_pred             hhHHHHHHHHHHhcCCccHHHHHHHHHHHcCCchHHHHHHHHHHHHHhhccc
Confidence            35678899999999999999999999999999999999999988766 6753

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.29  E-value=6.5e-05  Score=57.47  Aligned_cols=25  Identities=28%  Similarity=0.280  Sum_probs=22.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ++|+|+||+||||+|+.+++.+...
T Consensus         9 I~l~G~~GsGKTTia~~La~~L~~~   33 (183)
T d1m8pa3           9 IFLTGYMNSGKDAIARALQVTLNQQ   33 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhhc
Confidence            6899999999999999999998543

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.29  E-value=0.0011  Score=51.11  Aligned_cols=22  Identities=45%  Similarity=0.780  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||||+||||.++.+++.+
T Consensus         6 iil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           6 AVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7789999999999999999998

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.28  E-value=7.2e-05  Score=56.98  Aligned_cols=23  Identities=48%  Similarity=0.816  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++|.||||+||||+++.+++.+
T Consensus         7 ~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           7 NILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.28  E-value=0.00029  Score=56.71  Aligned_cols=43  Identities=16%  Similarity=0.305  Sum_probs=32.6

Q ss_pred             CCceEEEEeCCC-CCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          110 GKHKVVVLDEAD-SMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       110 ~~~~vviide~d-~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      .+++++++||+- .+.......+.+.+.+...+..+|++|.+.+
T Consensus       156 ~~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~  199 (241)
T d2pmka1         156 NNPKILIFDEATSALDYESEHVIMRNMHKICKGRTVIIIAHRLS  199 (241)
T ss_dssp             TCCSEEEECCCCSCCCHHHHHHHHHHHHHHHTTSEEEEECSSGG
T ss_pred             cccchhhhhCCccccCHHHHHHHHHHHHHHhCCCEEEEEECCHH
Confidence            467899999974 5677788888888877655666778887654

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=97.26  E-value=0.0013  Score=52.38  Aligned_cols=51  Identities=14%  Similarity=0.039  Sum_probs=41.2

Q ss_pred             CCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           23 KVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        23 ~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      .|..--.|..++..+...+.++...+.||+|..|+|||.++...+......
T Consensus        53 P~~lt~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~  103 (233)
T d2eyqa3          53 PFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDN  103 (233)
T ss_dssp             CSCCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTT
T ss_pred             ccccchhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHc
Confidence            455556688888899999999887678999999999999888877765443

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.24  E-value=0.0015  Score=49.93  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||||+||||.|+.+++.+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7899999999999999999998

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.24  E-value=0.00064  Score=52.72  Aligned_cols=23  Identities=26%  Similarity=0.523  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      -++|.||||+||+|.++.+++.+
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999999987

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.16  E-value=0.00011  Score=56.97  Aligned_cols=24  Identities=21%  Similarity=0.457  Sum_probs=22.2

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ..++|.||||+||||+++.+++.+
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            348999999999999999999998

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.15  E-value=0.00016  Score=56.34  Aligned_cols=25  Identities=28%  Similarity=0.514  Sum_probs=22.4

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           46 MPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .|-++|.||||+||||.|+.+++.+
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3447999999999999999999988

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.10  E-value=0.0016  Score=51.26  Aligned_cols=42  Identities=24%  Similarity=0.382  Sum_probs=30.5

Q ss_pred             CCCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ...-+.+++||+|.+... -.+.+.++++..+.++.+++.+..
T Consensus       149 l~~l~~lVlDEad~lld~~f~~~v~~I~~~~~~~~Q~vl~SAT  191 (212)
T d1qdea_         149 TDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSAT  191 (212)
T ss_dssp             CTTCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESS
T ss_pred             cCcceEEeehhhhhhcccchHHHHHHHHHhCCCCCeEEEEEee
Confidence            355789999999988543 356677777777777777776543

>d3bgea1 a.80.1.2 (A:251-434) Uncharacterized protein NTHI1458 {Haemophilus influenzae [TaxId: 727]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: MgsA/YrvN C-terminal domain-like
domain: Uncharacterized protein NTHI1458
species: Haemophilus influenzae [TaxId: 727]

Probab=97.10  E-value=0.00079  Score=51.01  Aligned_cols=50  Identities=14%  Similarity=0.075  Sum_probs=44.9

Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-ccc
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEM  285 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~  285 (331)
                      +++.+..+++++.+.|.+.|+.||..|+..|++|..|.+.|..++.+ +|+
T Consensus         4 hYd~iSA~~KSiRgSD~dAaly~larml~~GeDp~~i~RRl~~~AsEDIGl   54 (184)
T d3bgea1           4 FYDLISALHKSVRGSAPDAALYWYARILTAGGDPLYVARRLLAIASEDVGN   54 (184)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTGG
T ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCChHHHHHHHHHHHHhhcCC
Confidence            45678899999999999999999999999999999999999887765 564

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.09  E-value=0.0028  Score=50.03  Aligned_cols=43  Identities=26%  Similarity=0.331  Sum_probs=31.7

Q ss_pred             CCCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          109 PGKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      ...-+.+|+||+|.+... -.+.+..+++..+.+..+++.+...
T Consensus       153 ~~~l~~lVlDEaD~ll~~~f~~~~~~Il~~~~~~~Q~il~SAT~  196 (218)
T d2g9na1         153 PKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATM  196 (218)
T ss_dssp             STTCCEEEEESHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESCC
T ss_pred             cccceEEEeeecchhhcCchHHHHHHHHHhCCCCCeEEEEEecC
Confidence            456789999999998653 3566777777777778887776543

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.08  E-value=0.00021  Score=54.80  Aligned_cols=22  Identities=36%  Similarity=0.591  Sum_probs=21.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||||+||||.++.+++.+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7899999999999999999998

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.08  E-value=0.0018  Score=54.33  Aligned_cols=94  Identities=18%  Similarity=0.155  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCC--------------CCceEEeecCCCCChHhHHHH
Q 020071           31 LDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNY--------------REAVMELNASDDRGIDVVRNK   96 (331)
Q Consensus        31 ~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~--------------~~~~~~~~~~~~~~~~~i~~~   96 (331)
                      ++....|...+..+.  +++++|++|+||||+.+++...+.....              ...++.+.....   -...+.
T Consensus       153 ~~~~~~l~~~v~~~~--nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~---~~~~~l  227 (323)
T d1g6oa_         153 EQAISAIKDGIAIGK--NVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGN---ITSADC  227 (323)
T ss_dssp             HHHHHHHHHHHHHTC--CEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTT---BCHHHH
T ss_pred             HHHHHHHHHHHHhCC--CEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccc---hhHHHH
Confidence            566777888888776  6999999999999999999987753210              111222222111   133444


Q ss_pred             HHHHHhcccCCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhc
Q 020071           97 IKMFAQKKVTLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYS  139 (331)
Q Consensus        97 i~~~~~~~~~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~  139 (331)
                      ++.+.       ..++..+++.|+-.  .++.. +++.+....
T Consensus       228 l~~~l-------R~~pd~iivgEiR~--~ea~~-~l~a~~tGh  260 (323)
T d1g6oa_         228 LKSCL-------RMRPDRIILGELRS--SEAYD-FYNVLCSGH  260 (323)
T ss_dssp             HHHHT-------TSCCSEEEESCCCS--THHHH-HHHHHHTTC
T ss_pred             HHHHh-------ccCCCcccCCccCc--hhHHH-HHHHHHhcC
Confidence            44433       33467899999863  34444 566666443

>d2qw6a1 a.80.1.2 (A:241-328) Uncharacterized protein EfaeDRAFT_0938 {Enterococcus faecium [TaxId: 1352]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: MgsA/YrvN C-terminal domain-like
domain: Uncharacterized protein EfaeDRAFT 0938
species: Enterococcus faecium [TaxId: 1352]

Probab=97.08  E-value=0.0071  Score=39.28  Aligned_cols=82  Identities=15%  Similarity=0.135  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccChHhHHHHHHHHHHHHHHHhcCCCchHHHHHH
Q 020071          239 HVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAEHLKLEFMKEAGFAHMRICDGVGSYLQLCGL  317 (331)
Q Consensus       239 ~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~l~~l  317 (331)
                      .+..+.+++.+.|.+.++.|+.+|+..| ++..|.+.+...+.+ +|+.+.....+.....++-.++. --..++.|...
T Consensus         3 ~iSA~~KSiRgSD~dAAlywlarml~~G-D~~~i~RRLi~~AsEDIGlAdp~al~~~~~a~~a~~~iG-~PE~~i~La~a   80 (88)
T d2qw6a1           3 VISAFQKSIRGSDVDAALHYLARLVEAG-DLASICRRLMVIGYEDIGLGNPAAAARTVNAVLAAEKLG-LPEARIPLADV   80 (88)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHTC---CHHHHHHHHHHHHHHHHHC-TTTTHHHHHHH
T ss_pred             HHHHHHHHHHcCCccHHHHHHHHHHHcC-ChhHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHhC-CcHHHHHHHHH
Confidence            4678899999999999999999999999 899999999887765 67644444444444444333333 22445555555


Q ss_pred             HHHHH
Q 020071          318 LAKLS  322 (331)
Q Consensus       318 ~~~l~  322 (331)
                      +.-++
T Consensus        81 viyLa   85 (88)
T d2qw6a1          81 VVDLC   85 (88)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            54443

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.08  E-value=0.00098  Score=50.93  Aligned_cols=22  Identities=41%  Similarity=0.798  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||||+||||.++.+++.+
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7888999999999999999998

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.07  E-value=0.0002  Score=55.05  Aligned_cols=23  Identities=48%  Similarity=0.879  Sum_probs=21.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++|.||||+||||.++.+++.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999999998

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.05  E-value=0.003  Score=49.43  Aligned_cols=41  Identities=24%  Similarity=0.351  Sum_probs=29.9

Q ss_pred             CCCceEEEEeCCCCC-CHHHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          109 PGKHKVVVLDEADSM-TAGAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       109 ~~~~~vviide~d~l-~~~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      ..+-+.+||||+|.+ .....+.+.++++..+.++++++.+.
T Consensus       143 ~~~l~~lViDEad~l~~~~~~~~i~~I~~~~~~~~Q~i~~SA  184 (208)
T d1hv8a1         143 LKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSA  184 (208)
T ss_dssp             TTSCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEECS
T ss_pred             cccCcEEEEEChHHhhcCCChHHHHHHHHhCCCCCeEEEEEc
Confidence            455689999999976 33345667788887777788877664

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.04  E-value=0.0078  Score=46.88  Aligned_cols=43  Identities=14%  Similarity=0.225  Sum_probs=30.6

Q ss_pred             CCCceEEEEeCCCCCCH--HHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          109 PGKHKVVVLDEADSMTA--GAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       109 ~~~~~vviide~d~l~~--~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      ..+-+.+++||+|.+-.  .-.+.+..+++..+.+..+++.+...
T Consensus       143 l~~l~~lVlDEaD~ll~~~~~~~~i~~I~~~~~~~~Q~il~SAT~  187 (207)
T d1t6na_         143 LKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL  187 (207)
T ss_dssp             CTTCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEESCC
T ss_pred             ccccceeehhhhhhhhhcCCcHHHHHHHHHhCCCCCEEEEEeeeC
Confidence            45678999999997743  35566777777777777777765443

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.02  E-value=0.00025  Score=55.05  Aligned_cols=23  Identities=26%  Similarity=0.494  Sum_probs=21.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++|.||||+||||.|+.+++.+
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37999999999999999999988

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.02  E-value=0.00028  Score=54.72  Aligned_cols=25  Identities=24%  Similarity=0.476  Sum_probs=22.4

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           46 MPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .-.++|.||||+||||.++.+++.+
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            3357889999999999999999988

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.97  E-value=0.0034  Score=48.98  Aligned_cols=41  Identities=20%  Similarity=0.270  Sum_probs=29.1

Q ss_pred             CCCceEEEEeCCCCCCH-HHHHHHHHHHHHhcCCcEEEEeeC
Q 020071          109 PGKHKVVVLDEADSMTA-GAQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       109 ~~~~~vviide~d~l~~-~~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      ...-+.+|+||+|.|.. .-.+.+..+++..+.+..+++.+.
T Consensus       144 ~~~l~~lVlDEaD~ll~~~f~~~i~~I~~~~~~~~Q~~l~SA  185 (206)
T d1veca_         144 VDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSA  185 (206)
T ss_dssp             CTTCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEES
T ss_pred             ccccceEEEeccccccccchHHHHHHHHHhCCCCCEEEEEEe
Confidence            45678999999997753 335566777777777777776654

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.96  E-value=0.0006  Score=53.04  Aligned_cols=22  Identities=32%  Similarity=0.456  Sum_probs=17.7

Q ss_pred             eEEEeCCCCccHHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +.++++|.|+|||.++..++..
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~~   46 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAEY   46 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHHHHHHH
Confidence            4889999999999876666553

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.96  E-value=0.0003  Score=53.89  Aligned_cols=28  Identities=29%  Similarity=0.415  Sum_probs=24.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYR   76 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~   76 (331)
                      ++|.|++|+||||+++.+++.+...+..
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~~~~~~   31 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMDNLRKEGVN   31 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCC
Confidence            6999999999999999999998655433

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.93  E-value=0.00034  Score=55.38  Aligned_cols=24  Identities=42%  Similarity=0.692  Sum_probs=22.0

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      |-+.+.||||+||+|.++.+++.+
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            446889999999999999999998

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.93  E-value=0.00016  Score=58.34  Aligned_cols=37  Identities=22%  Similarity=0.370  Sum_probs=28.0

Q ss_pred             HHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           37 LGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        37 l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      |.+.+.+|-.+.  ++++||||+|||+++..++......
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~   53 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACAN   53 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            445555553333  6999999999999999999987544

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.90  E-value=0.00086  Score=52.33  Aligned_cols=40  Identities=15%  Similarity=0.136  Sum_probs=27.7

Q ss_pred             CCceEEEEeCCCCCCHH----HHHHHHHHHHHhcCCcEEEEeeC
Q 020071          110 GKHKVVVLDEADSMTAG----AQQALRRTMEIYSNSTRFALACN  149 (331)
Q Consensus       110 ~~~~vviide~d~l~~~----~~~~Ll~~le~~~~~~~~I~~~~  149 (331)
                      ....+||+||+|.+..+    ..+.++..+...++++++|+.|.
T Consensus       137 ~~~~~ii~DE~h~~~~~~r~~~~~~~l~~i~~~~~~~~~l~lSA  180 (202)
T d2p6ra3         137 KAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSA  180 (202)
T ss_dssp             GGCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEEC
T ss_pred             hhhhhccccHHHHhcccccchHHHHHHHHHHhcCCCCcEEEEcC
Confidence            34679999999987532    34556666776667777776553

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.82  E-value=0.0044  Score=48.94  Aligned_cols=42  Identities=24%  Similarity=0.290  Sum_probs=30.1

Q ss_pred             CCCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ...-+.+|+||+|.+-.. -.+.+..+++..+.+..+++.+..
T Consensus       157 ~~~l~~lVlDEaD~ll~~~f~~~i~~I~~~l~~~~Q~ilfSAT  199 (222)
T d2j0sa1         157 TRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISAT  199 (222)
T ss_dssp             CTTCCEEEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEESC
T ss_pred             cccceeeeecchhHhhhcCcHHHHHHHHHhCCCCCEEEEEEEe
Confidence            355789999999987543 456677777777777777776544

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.80  E-value=0.0024  Score=51.58  Aligned_cols=42  Identities=14%  Similarity=0.309  Sum_probs=31.3

Q ss_pred             CceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          111 KHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       111 ~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      ++.++++||+ -.+.......+.+.+.+...+..+|++|.+.+
T Consensus       170 ~p~ililDEpts~LD~~~~~~i~~~l~~l~~~~Tvi~itH~l~  212 (253)
T d3b60a1         170 DSPILILDEATSALDTESERAIQAALDELQKNRTSLVIAHRLS  212 (253)
T ss_dssp             CCSEEEEETTTSSCCHHHHHHHHHHHHHHHTTSEEEEECSCGG
T ss_pred             CCCEEEeccccccCCHHHHHHHHHHHHHhccCCEEEEEECCHH
Confidence            4789999997 45677777888888876655666777777654

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.80  E-value=0.00042  Score=52.98  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||||+||||.++.+++.+
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6889999999999999999998

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.77  E-value=0.0052  Score=47.84  Aligned_cols=42  Identities=14%  Similarity=0.240  Sum_probs=30.2

Q ss_pred             CCCceEEEEeCCCCCCHH-HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          109 PGKHKVVVLDEADSMTAG-AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~-~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      ..+-+.+|+||+|.+-.. -.+.+..+++..+..+.+|+.+..
T Consensus       141 l~~l~~lV~DEaD~l~~~~f~~~v~~I~~~l~~~~Q~il~SAT  183 (206)
T d1s2ma1         141 LSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSAT  183 (206)
T ss_dssp             CTTCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEESC
T ss_pred             cccceEEEeechhhhhhhhhHHHHHHHHHhCCCCCEEEEEEEe
Confidence            355689999999988643 456677777777777777776543

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.74  E-value=0.002  Score=51.98  Aligned_cols=42  Identities=14%  Similarity=0.340  Sum_probs=32.1

Q ss_pred             CceEEEEeCC-CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          111 KHKVVVLDEA-DSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       111 ~~~vviide~-d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      +++++++||+ ..+.......+.+.+.....+..+|++|.+.+
T Consensus       172 ~p~ililDEpts~LD~~t~~~i~~~l~~l~~~~TvI~itH~~~  214 (255)
T d2hyda1         172 NPPILILDEATSALDLESESIIQEALDVLSKDRTTLIVAHRLS  214 (255)
T ss_dssp             CCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEECSSGG
T ss_pred             CCCEEEEeCccccCCHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence            5789999997 46677788888888887665566777787654

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.74  E-value=0.0026  Score=50.31  Aligned_cols=42  Identities=17%  Similarity=0.282  Sum_probs=30.2

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYS--NSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~--~~~~~I~~~~~~  151 (331)
                      .+++++++||. -.+.+.....+.+.+.+..  .+..+|++|.+.
T Consensus       144 ~~P~iLllDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vtHd~  188 (229)
T d3d31a2         144 TNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHITHDQ  188 (229)
T ss_dssp             SCCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEEEESCH
T ss_pred             ccCCceeecCCCcCCCHHHHHHHHHHHHHHHhcCCcEEEEEcCCH
Confidence            56899999996 5667777777777776532  356677777664

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=96.72  E-value=0.0053  Score=53.09  Aligned_cols=93  Identities=14%  Similarity=0.237  Sum_probs=60.2

Q ss_pred             CCCCCccccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-------------
Q 020071           21 PTKVCDIVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-------------   87 (331)
Q Consensus        21 p~~~~~~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-------------   87 (331)
                      +.+++++--.+.....+++++.... .-++|.||+|+||||+...+.+.+....  .+++.+.-+-.             
T Consensus       134 ~~~l~~LG~~~~~~~~l~~l~~~~~-GliLvtGpTGSGKSTTl~~~l~~~~~~~--~~i~tiEdPiE~~~~~~~q~~v~~  210 (401)
T d1p9ra_         134 RLDLHSLGMTAHNHDNFRRLIKRPH-GIILVTGPTGSGKSTTLYAGLQELNSSE--RNILTVEDPIEFDIDGIGQTQVNP  210 (401)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHHTSSS-EEEEEECSTTSCHHHHHHHHHHHHCCTT--SCEEEEESSCCSCCSSSEEEECBG
T ss_pred             chhhhhhcccHHHHHHHHHHHhhhh-ceEEEEcCCCCCccHHHHHHhhhhcCCC--ceEEEeccCcccccCCCCeeeecC
Confidence            3467777667888888888876544 1279999999999999999999986542  23333221110             


Q ss_pred             CChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC
Q 020071           88 RGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM  123 (331)
Q Consensus        88 ~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l  123 (331)
                      .....+.+.++.+..       .++.+++|.|+-..
T Consensus       211 ~~~~~~~~~l~~~lR-------~dPDvi~igEiRd~  239 (401)
T d1p9ra_         211 RVDMTFARGLRAILR-------QDPDVVMVGEIRDL  239 (401)
T ss_dssp             GGTBCHHHHHHHHGG-------GCCSEEEESCCCSH
T ss_pred             CcCCCHHHHHHHHHh-------hcCCEEEecCcCCh
Confidence            011234455554443       34779999998653

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.72  E-value=0.00056  Score=54.18  Aligned_cols=22  Identities=27%  Similarity=0.614  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.+.||||+||||.|+.+++.+
T Consensus         6 IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4677999999999999999999

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.69  E-value=0.00039  Score=54.75  Aligned_cols=34  Identities=26%  Similarity=0.373  Sum_probs=25.1

Q ss_pred             HHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           38 GIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        38 ~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +....+.+..-++|+|.||+||||+|+.+.+.+.
T Consensus        16 r~~~~~~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          16 RTELRNQRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             HHHHHTSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3334443322379999999999999999998763

>d2r9ga1 a.80.1.2 (A:238-423) Uncharacterized protein EfaeDRAFT_0938 {Enterococcus faecium [TaxId: 1352]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: MgsA/YrvN C-terminal domain-like
domain: Uncharacterized protein EfaeDRAFT 0938
species: Enterococcus faecium [TaxId: 1352]

Probab=96.68  E-value=0.016  Score=43.71  Aligned_cols=54  Identities=17%  Similarity=0.159  Sum_probs=45.5

Q ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cccChHhH
Q 020071          236 HPLHVKNMVRNVLEGKFDDACSGLKQLYDLGYSPTDIITTLFRIIKN-YEMAEHLK  290 (331)
Q Consensus       236 ~~~~i~~l~~~~~~~~~~~~~~~l~~l~~~g~~~~~i~~~l~~~~~~-~~~~~~~~  290 (331)
                      +++.+..+.+++.+.|.+.|+.|+.+|+..| ++..|.+.|..++.+ +|+.+...
T Consensus         3 hyd~iSA~~KSiRgSD~daAly~larml~~G-d~~~i~RRL~~~AsEDIGlAdp~a   57 (186)
T d2r9ga1           3 HYDVISAFQKSIRGSDVDAALHYLARLVEAG-DLASICRRLMVIGYEDIGLGNPAA   57 (186)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHTTGGGCHHH
T ss_pred             HHHHHHHHHHHHhcCCHhHHHHHHHHHHHcC-CchHHHHHHHHHHHHHhhccChHH
Confidence            4577889999999999999999999999999 899999999887765 66633333

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.66  E-value=0.00057  Score=52.47  Aligned_cols=25  Identities=32%  Similarity=0.448  Sum_probs=22.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      ++|.|++|+||||+++.+++.+...
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHc
Confidence            5899999999999999999998654

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.65  E-value=0.0045  Score=49.82  Aligned_cols=42  Identities=21%  Similarity=0.230  Sum_probs=30.5

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSN--STRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~--~~~~I~~~~~~  151 (331)
                      .+++++++||+ ..+.......+.+.+.+...  +..+|++|.+.
T Consensus       168 ~~p~ililDEpTs~LD~~~~~~i~~~l~~l~~~~~~Tvi~itH~l  212 (251)
T d1jj7a_         168 RKPCVLILDDATSALDANSQLQVEQLLYESPERYSRSVLLITQHL  212 (251)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHTCGGGGGCEEEEECSCH
T ss_pred             cCCcEEEecCcCcccChhhHHHHHHHHHHHhhhcCCEEEEEeCCH
Confidence            46899999996 56677778888888876433  45567777653

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.64  E-value=0.0016  Score=51.96  Aligned_cols=42  Identities=14%  Similarity=0.184  Sum_probs=30.2

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYS--NSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~--~~~~~I~~~~~~  151 (331)
                      .+++++++||. -.+.+.....+++.+.+..  .++.+|++|.+.
T Consensus       153 ~~P~iLllDEPts~LD~~~~~~i~~ll~~l~~~~g~tii~vTHd~  197 (239)
T d1v43a3         153 VEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQ  197 (239)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCH
T ss_pred             cCCCceeecCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCH
Confidence            46899999996 5667777777777776542  256677777664

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=96.64  E-value=0.0033  Score=46.61  Aligned_cols=100  Identities=15%  Similarity=0.175  Sum_probs=52.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC-----CCCC------------ceEEeecCCCC-ChHhHHH-HHHHHHhcccCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP-----NYRE------------AVMELNASDDR-GIDVVRN-KIKMFAQKKVTLPP  109 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~-----~~~~------------~~~~~~~~~~~-~~~~i~~-~i~~~~~~~~~~~~  109 (331)
                      ++|.|++|+|||++..++...-...     +...            .+..++..... ....... ........-.   .
T Consensus         4 I~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~---~   80 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIE---Q   80 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHH---T
T ss_pred             EEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccCceeeeccccccccccccchhHHHHHHHHHHH---h
Confidence            7999999999999999997542110     0000            11111111111 1111111 1111111110   3


Q ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~  151 (331)
                      ...-++++|.-+.........+...+........+|++.|..
T Consensus        81 ~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~  122 (161)
T d2gj8a1          81 ADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKA  122 (161)
T ss_dssp             CSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECH
T ss_pred             ccccceeeccccccchhhhhhhhhhhhhcccccceeeccchh
Confidence            345677777766665555666667777766677788887763

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.62  E-value=0.0013  Score=50.72  Aligned_cols=25  Identities=32%  Similarity=0.307  Sum_probs=21.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +-+.|++|+||||+|+.+++.+...
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~~~   49 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLREQ   49 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhccc
Confidence            4699999999999999999987543

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.62  E-value=0.0018  Score=51.98  Aligned_cols=35  Identities=26%  Similarity=0.210  Sum_probs=26.3

Q ss_pred             HHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhc
Q 020071           37 LGIIARDGNMPN--LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        37 l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      |..++..|-++.  ++++||||+|||+++..++....
T Consensus        25 LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          25 LDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            444455543333  69999999999999999988764

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.59  E-value=0.0016  Score=52.24  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.+.||+|+||||+++.+...+.
T Consensus        31 vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          31 IAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCCCHHHHHHHHHHhhC
Confidence            79999999999999999988664

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.58  E-value=0.0018  Score=48.53  Aligned_cols=21  Identities=19%  Similarity=0.412  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||+++..+...
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999988864

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=96.56  E-value=0.024  Score=41.30  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999997654

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.55  E-value=0.0055  Score=49.64  Aligned_cols=47  Identities=26%  Similarity=0.387  Sum_probs=31.0

Q ss_pred             HHHHHHHcCCCC--e-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           36 RLGIIARDGNMP--N-LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        36 ~l~~~l~~~~~~--~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      .|..++..|.+|  + ..|+||+|+|||+++..++.....++  ..++.++.
T Consensus        41 ~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidt   90 (263)
T d1u94a1          41 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDA   90 (263)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEES
T ss_pred             HHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHcCC--CEEEEEcc
Confidence            344445435444  2 59999999999999999988775442  33444443

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.47  E-value=0.0061  Score=47.48  Aligned_cols=41  Identities=15%  Similarity=0.165  Sum_probs=29.6

Q ss_pred             CCceEEEEeCCCCCCHHH-HHHHHHHHHHhcCCcEEEEeeCC
Q 020071          110 GKHKVVVLDEADSMTAGA-QQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       110 ~~~~vviide~d~l~~~~-~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+-+.++|||+|.+.... .+.+..++...+.+..+++.+..
T Consensus       146 ~~l~~lViDEad~ll~~~f~~~v~~I~~~~~~~~Q~il~SAT  187 (209)
T d1q0ua_         146 HTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSAT  187 (209)
T ss_dssp             GGCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEESC
T ss_pred             ccceEEEEeecccccccccHHHHHHHHHHCCCCCEEEEEEcc
Confidence            456899999999886542 45566777776777888776643

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.39  E-value=0.0046  Score=46.40  Aligned_cols=23  Identities=26%  Similarity=0.528  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|.+|+|||+++..+...-.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~f   31 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQF   31 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCCC
Confidence            79999999999999999987543

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.36  E-value=0.005  Score=48.93  Aligned_cols=51  Identities=20%  Similarity=0.141  Sum_probs=31.8

Q ss_pred             HHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCC----CCCCceEEeecCCC
Q 020071           37 LGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGP----NYREAVMELNASDD   87 (331)
Q Consensus        37 l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~----~~~~~~~~~~~~~~   87 (331)
                      |...+.+|-.+.  ++|+||||+|||+++..++......    ..+..++.++....
T Consensus        23 LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~   79 (251)
T d1szpa2          23 LDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGT   79 (251)
T ss_dssp             HHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSC
T ss_pred             HHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecch
Confidence            444454443333  6999999999999999987653211    12344555555444

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.35  E-value=0.0043  Score=50.22  Aligned_cols=44  Identities=18%  Similarity=0.070  Sum_probs=36.0

Q ss_pred             ccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           28 VGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        28 ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      -.|..++..+.+.+.++..-+-||+|..|+|||-++...+....
T Consensus        86 ~~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~  129 (264)
T d1gm5a3          86 NAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNY  129 (264)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHHH
Confidence            45788888888888888766679999999999998887776554

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.34  E-value=0.003  Score=50.08  Aligned_cols=42  Identities=14%  Similarity=0.203  Sum_probs=28.4

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHh--cCCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIY--SNSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~--~~~~~~I~~~~~~  151 (331)
                      .++.++++||. -.+.+.....+++.+.+.  ..+..+|++|.+.
T Consensus       147 ~~P~illlDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~  191 (232)
T d2awna2         147 AEPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLGRTMIYVTHDQ  191 (232)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCH
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            36899999996 466777777676666543  2356677777654

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.34  E-value=0.018  Score=43.29  Aligned_cols=101  Identities=16%  Similarity=0.189  Sum_probs=52.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC---CC--------------CCceEEeecCCCC-ChHhHHHHHHHHHhcccCCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP---NY--------------REAVMELNASDDR-GIDVVRNKIKMFAQKKVTLPPG  110 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~---~~--------------~~~~~~~~~~~~~-~~~~i~~~i~~~~~~~~~~~~~  110 (331)
                      +.|.|.+|+|||++++.+...-...   ..              +..+..++.+... ......+..........  ...
T Consensus         8 I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~--~~a   85 (178)
T d1wf3a1           8 VAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEAL--ADV   85 (178)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHT--SSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeeeeeeeecccccccccccccchhccccccccc--ccc
Confidence            8999999999999999998642110   00              0112222222211 11122222222111111  134


Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      +--++++|--+..... ...+.+.+.....+..+|++.|...
T Consensus        86 d~il~v~D~~~~~~~~-~~~i~~~l~~~~~~~piilv~NK~D  126 (178)
T d1wf3a1          86 NAVVWVVDLRHPPTPE-DELVARALKPLVGKVPILLVGNKLD  126 (178)
T ss_dssp             SEEEEEEETTSCCCHH-HHHHHHHHGGGTTTSCEEEEEECGG
T ss_pred             cceeeeechhhhhccc-ccchhhheeccccchhhhhhhcccc
Confidence            4556777765555543 4566677776666677777777543

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.31  E-value=0.0013  Score=49.47  Aligned_cols=33  Identities=18%  Similarity=0.230  Sum_probs=26.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEE
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVME   81 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~   81 (331)
                      +-+.|++|+||||++..++..+...+....++.
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik   36 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   36 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            469999999999999999999876654444443

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.30  E-value=0.0029  Score=53.13  Aligned_cols=44  Identities=32%  Similarity=0.486  Sum_probs=33.4

Q ss_pred             CCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           44 GNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        44 ~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      ++...+-++||||+||||++..+++.+...+....++.++++..
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~   95 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSP   95 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCcee
Confidence            33333799999999999999999999877666666777776554

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.28  E-value=0.0015  Score=52.08  Aligned_cols=42  Identities=10%  Similarity=0.146  Sum_probs=29.3

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhcC--CcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYSN--STRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~~--~~~~I~~~~~~  151 (331)
                      .++.++++||. -.+.+.....+.+.+.+...  ++.+|++|.+.
T Consensus       143 ~~P~illlDEPts~LD~~~~~~i~~~i~~l~~~~g~tvi~vtHd~  187 (240)
T d2onka1         143 IQPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPILHVTHDL  187 (240)
T ss_dssp             TCCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCEEEEESCH
T ss_pred             ccCCceEecCccccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCH
Confidence            46899999996 46677777777777765422  45566777653

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.27  E-value=0.01  Score=46.88  Aligned_cols=42  Identities=2%  Similarity=0.181  Sum_probs=31.4

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYS--NSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~--~~~~~I~~~~~~  151 (331)
                      .+++++++||. -.|.+.....+++++.+..  .++.+|++|.+.
T Consensus       162 ~~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~  206 (230)
T d1l2ta_         162 NNPPIILADQPTGALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDI  206 (230)
T ss_dssp             TCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEEECSCH
T ss_pred             cCCCEEEecCCccccCHHHHHHHHHHHHHHHHhhCCEEEEECCCH
Confidence            46899999996 4667778888888887653  356778888754

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.25  E-value=0.0012  Score=50.77  Aligned_cols=23  Identities=39%  Similarity=0.691  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|+||+|+|||++++.+++...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            89999999999999999999874

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.25  E-value=0.01  Score=44.03  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|.+|+|||++++.+...-
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999998643

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.24  E-value=0.006  Score=48.78  Aligned_cols=36  Identities=19%  Similarity=-0.004  Sum_probs=26.7

Q ss_pred             HHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           37 LGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        37 l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      |..++..|-++.  ++|+||||+|||+++..++....+
T Consensus        26 LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~   63 (258)
T d1v5wa_          26 FDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQL   63 (258)
T ss_dssp             HHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTS
T ss_pred             HHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            344444554444  699999999999999999986543

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.22  E-value=0.0013  Score=51.55  Aligned_cols=37  Identities=27%  Similarity=0.185  Sum_probs=27.2

Q ss_pred             HHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           37 LGIIARDGNMPN--LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        37 l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      |...+.+|-.+.  ++|+||||+|||+++..++......
T Consensus        12 LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          12 LDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             HHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             HHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            444554443333  6999999999999999999876543

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.22  E-value=0.0046  Score=46.46  Aligned_cols=22  Identities=32%  Similarity=0.587  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||++++.+...-
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999998754

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.21  E-value=0.023  Score=42.19  Aligned_cols=22  Identities=18%  Similarity=0.425  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999998754

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.18  E-value=0.018  Score=45.73  Aligned_cols=42  Identities=14%  Similarity=0.194  Sum_probs=30.2

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhc--CCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYS--NSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~--~~~~~I~~~~~~  151 (331)
                      .+++++++||. -.+.+.....+++.+.+..  .++.+|++|.+.
T Consensus       156 ~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~  200 (240)
T d1g2912         156 RKPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQ  200 (240)
T ss_dssp             TCCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCH
T ss_pred             cCCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCH
Confidence            46899999996 4667777777777776542  256677887764

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=96.18  E-value=0.026  Score=42.06  Aligned_cols=33  Identities=21%  Similarity=0.338  Sum_probs=24.3

Q ss_pred             HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHH
Q 020071           36 RLGIIARDGNMPNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        36 ~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .+-+.+.+... .++|.|.+|+|||+++..+...
T Consensus         6 ~~~~~~~~k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           6 RIWRLFNHQEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHTTSCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHhCCCeE-EEEEECCCCCCHHHHHHHHhcC
Confidence            34444444442 3899999999999999988753

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.17  E-value=0.0015  Score=50.36  Aligned_cols=22  Identities=41%  Similarity=0.733  Sum_probs=21.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.||+|+|||++++.+++..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7899999999999999999987

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.14  E-value=0.011  Score=44.03  Aligned_cols=22  Identities=27%  Similarity=0.548  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999988753

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.08  E-value=0.0024  Score=48.46  Aligned_cols=24  Identities=21%  Similarity=0.416  Sum_probs=20.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +++.|++|+|||+++..+...-..
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~~f~   28 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKDQFP   28 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSCCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCCCC
Confidence            789999999999999998876433

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.07  E-value=0.015  Score=47.10  Aligned_cols=50  Identities=22%  Similarity=0.325  Sum_probs=32.3

Q ss_pred             HHHHHHHcCCCCe---EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC
Q 020071           36 RLGIIARDGNMPN---LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD   87 (331)
Q Consensus        36 ~l~~~l~~~~~~~---~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~   87 (331)
                      .|...+..|.+|.   ..|+||+|+|||+++..++......  +..++.++....
T Consensus        47 ~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~--g~~~vyIDtE~~   99 (269)
T d1mo6a1          47 ALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHA   99 (269)
T ss_dssp             HHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHT--TCEEEEEESSCC
T ss_pred             HHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcC--CCEEEEEECCcc
Confidence            3444454344443   5999999999999998887765433  334566665543

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=96.05  E-value=0.013  Score=43.40  Aligned_cols=23  Identities=35%  Similarity=0.377  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|.|++|+|||++...+...-.
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~~   27 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQF   27 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCCC
Confidence            78999999999999999977543

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.04  E-value=0.0043  Score=45.90  Aligned_cols=48  Identities=19%  Similarity=0.194  Sum_probs=32.4

Q ss_pred             CccccCHHHHHHHHHHHHc-----CCCCe--EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           25 CDIVGNLDAVARLGIIARD-----GNMPN--LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        25 ~~~ig~~~~~~~l~~~l~~-----~~~~~--~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      ...+..+.....+-+.+.+     ...|.  ++|.|+=|+|||++++.+++.+..
T Consensus         5 ~~~l~~e~~t~~lg~~la~~l~~~~~~~g~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_           5 TQYIPDEFSMLRFGKKFAEILLKLHTEKAIMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EEEECSHHHHHHHHHHHHHHHHHHCCSSCEEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             eeeCCCHHHHHHHHHHHHHHHHhccCCCCeEEEEecCCCccHHHHHHHHHhhccc
Confidence            3445566555554333322     22233  699999999999999999999854

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=96.02  E-value=0.013  Score=43.79  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|.+|+|||+++..+...-
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999987643

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.99  E-value=0.013  Score=47.81  Aligned_cols=23  Identities=35%  Similarity=0.622  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||.|+||||+++.++..+.
T Consensus        65 vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          65 LAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCChHHHHHHHHhCCCc
Confidence            78999999999999999988664

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.96  E-value=0.002  Score=49.21  Aligned_cols=23  Identities=30%  Similarity=0.638  Sum_probs=21.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|.||+|+||+|+++.+.+...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            69999999999999999998863

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.93  E-value=0.0067  Score=46.11  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|.+|+|||+++..+...-
T Consensus         8 ivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999988754

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.90  E-value=0.027  Score=41.94  Aligned_cols=22  Identities=23%  Similarity=0.555  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|.+|+|||+++..+...-
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999998753

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.89  E-value=0.0084  Score=45.06  Aligned_cols=21  Identities=29%  Similarity=0.605  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||+++..+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998765

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=95.89  E-value=0.012  Score=47.62  Aligned_cols=48  Identities=25%  Similarity=0.340  Sum_probs=32.3

Q ss_pred             HHHHHHcCCCCe---EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           37 LGIIARDGNMPN---LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        37 l~~~l~~~~~~~---~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      |...+..|.+|.   ..|+||+|+|||+++..++.....+  +..++.++...
T Consensus        45 lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk~--g~~v~yiDtE~   95 (268)
T d1xp8a1          45 LDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKA--GGTCAFIDAEH   95 (268)
T ss_dssp             HHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSC
T ss_pred             HHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHhC--CCEEEEEECCc
Confidence            334443354433   5999999999999999998876544  33456666543

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.87  E-value=0.0058  Score=46.00  Aligned_cols=23  Identities=22%  Similarity=0.514  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|.+|+|||+++..+...-.
T Consensus         9 v~lvG~~~vGKTsLi~r~~~~~f   31 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQSYF   31 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCCC
Confidence            89999999999999999887543

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=95.84  E-value=0.02  Score=41.29  Aligned_cols=89  Identities=15%  Similarity=0.176  Sum_probs=48.8

Q ss_pred             EEeCCCCccHHH-HHHHHHHHhcCCCCCCceEEeecCCC-C----------------ChHhHHHHHHHHHhcccCCCCCC
Q 020071           50 ILAGPPGTGKTT-SILALAHELLGPNYREAVMELNASDD-R----------------GIDVVRNKIKMFAQKKVTLPPGK  111 (331)
Q Consensus        50 ll~G~~G~GKt~-la~~l~~~l~~~~~~~~~~~~~~~~~-~----------------~~~~i~~~i~~~~~~~~~~~~~~  111 (331)
                      +++||=.+|||+ +.+.+.+...+   +..++.+++... +                ......+.+........   ...
T Consensus         6 ~i~GpMfsGKTteLi~~~~~~~~~---~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~~---~~~   79 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLHRLEYA---DVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSF---NDE   79 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHT---TCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTS---CTT
T ss_pred             EEEccccCHHHHHHHHHHHHHHHC---CCcEEEEEEcccccccceEEcccCceeeeEEeccchhhHHHHHhhcc---ccC
Confidence            899999999998 55555443322   223333333211 0                01122233333322222   345


Q ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEe
Q 020071          112 HKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALA  147 (331)
Q Consensus       112 ~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~  147 (331)
                      ..+|+|||++.++. ....+...+.+..  ..+++.
T Consensus        80 ~dvI~IDE~QFf~d-~i~~~~~~~~~~g--~~Viv~  112 (139)
T d2b8ta1          80 TKVIGIDEVQFFDD-RICEVANILAENG--FVVIIS  112 (139)
T ss_dssp             CCEEEECSGGGSCT-HHHHHHHHHHHTT--CEEEEE
T ss_pred             cCEEEechhhhcch-hHHHHHHHHHhcC--ceEEEE
Confidence            78999999999974 4556666666533  344554

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.84  E-value=0.014  Score=43.64  Aligned_cols=22  Identities=23%  Similarity=0.496  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~~   29 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADDS   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHcCC
Confidence            7999999999999999998753

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=95.82  E-value=0.0056  Score=51.22  Aligned_cols=38  Identities=34%  Similarity=0.501  Sum_probs=31.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASD   86 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~   86 (331)
                      +=++||||+||||++..+.+.+.+.+....++.++++.
T Consensus        54 igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss   91 (323)
T d2qm8a1          54 VGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   91 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             EeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccccc
Confidence            79999999999999999999887666666666666543

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.77  E-value=0.019  Score=42.59  Aligned_cols=22  Identities=23%  Similarity=0.419  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|.+|+|||++++.+...-
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999998753

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=95.76  E-value=0.0085  Score=44.53  Aligned_cols=99  Identities=18%  Similarity=0.186  Sum_probs=51.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCC---CCCceEEeecC-------CCCChHhHHHHHHHHHhcccCCCCCCceEEEE
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPN---YREAVMELNAS-------DDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVL  117 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~---~~~~~~~~~~~-------~~~~~~~i~~~i~~~~~~~~~~~~~~~~vvii  117 (331)
                      .++|.|++|+|||++++.+...-....   .+.....++..       +..|.+..+.....      .......-++++
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~------~~~~~~~~i~v~   77 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRN------YFESTDGLIWVV   77 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCCCSSCCCCSSEEEEEEEETTEEEEEEEECCSHHHHTTGGG------GCTTCSEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCCcccceEeeeeeeccccccceeeeecCcchhhhhHHHh------hhhhhhcceeee
Confidence            389999999999999999865432211   11112222211       11232222221111      112345667788


Q ss_pred             eCCCCCCH-HHHHHHHHHHHH-hcCCcEEEEeeCCCC
Q 020071          118 DEADSMTA-GAQQALRRTMEI-YSNSTRFALACNVSS  152 (331)
Q Consensus       118 de~d~l~~-~~~~~Ll~~le~-~~~~~~~I~~~~~~~  152 (331)
                      |-.+.-+- +..+.+...+.. ...+.+++++.|...
T Consensus        78 d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D  114 (165)
T d1ksha_          78 DSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQD  114 (165)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTT
T ss_pred             ecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccc
Confidence            77766543 334445555543 235677788777643

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=95.73  E-value=0.034  Score=44.14  Aligned_cols=43  Identities=12%  Similarity=0.143  Sum_probs=31.3

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCcEEEEeeCCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYS-NSTRFALACNVSS  152 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~-~~~~~I~~~~~~~  152 (331)
                      .+++++++||. -.+.+.....+.+++.+.. .++.+|+++.+..
T Consensus       156 ~~P~lLllDEPt~gLD~~~~~~i~~~i~~l~~~g~til~~tH~l~  200 (240)
T d1ji0a_         156 SRPKLLMMDEPSLGLAPILVSEVFEVIQKINQEGTTILLVEQNAL  200 (240)
T ss_dssp             TCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHTTCCEEEEESCHH
T ss_pred             hCCCEeeecCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence            56899999996 5678888888888887543 3455677776543

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.71  E-value=0.0081  Score=45.23  Aligned_cols=22  Identities=23%  Similarity=0.487  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         7 i~vvG~~~vGKTsLi~~~~~~~   28 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTRNE   28 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999987743

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.70  E-value=0.013  Score=43.90  Aligned_cols=21  Identities=24%  Similarity=0.526  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|.+|+|||+++..+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999998764

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.70  E-value=0.0055  Score=46.50  Aligned_cols=23  Identities=22%  Similarity=0.473  Sum_probs=20.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|.|++|+|||+++..+...-.
T Consensus         5 ivliG~~~vGKTsli~r~~~~~f   27 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDCF   27 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCCC
Confidence            79999999999999999987643

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.63  E-value=0.027  Score=43.41  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=20.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++|.|++|+|||++...+...-
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            58999999999999999998753

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.60  E-value=0.0051  Score=47.93  Aligned_cols=23  Identities=35%  Similarity=0.544  Sum_probs=21.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ++|+||+|+||+++.+.+.+...
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            79999999999999999999864

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.60  E-value=0.0066  Score=46.29  Aligned_cols=23  Identities=22%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|.+|+|||+++..+...-.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~f   34 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDAF   34 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSSC
T ss_pred             EEEECCCCCCHHHHHHHHhhCCC
Confidence            79999999999999999887543

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=95.57  E-value=0.013  Score=46.59  Aligned_cols=42  Identities=12%  Similarity=0.224  Sum_probs=30.1

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHhc-CCcEEEEeeCCC
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIYS-NSTRFALACNVS  151 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~~-~~~~~I~~~~~~  151 (331)
                      .+++++++||. ..+.+.....+.+++.+.. .+..+|+++.+.
T Consensus       150 ~~p~illLDEPt~gLD~~~~~~i~~~i~~~~~~g~tii~~tH~l  193 (238)
T d1vpla_         150 VNPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNM  193 (238)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCH
T ss_pred             cCCCEEEecCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            56899999995 5677777777777776543 345677777654

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.51  E-value=0.0046  Score=48.31  Aligned_cols=27  Identities=26%  Similarity=0.362  Sum_probs=23.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      +.|.|+.|+||||.++.+++.+.+.+.
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L~~~g~   32 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEALCAAGH   32 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            688899999999999999999865533

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.51  E-value=0.016  Score=47.91  Aligned_cols=39  Identities=23%  Similarity=0.242  Sum_probs=27.7

Q ss_pred             CCCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           45 NMPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        45 ~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      +.|- +-+.|++|+||||+|+.+...+.....+..+..+.
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is  117 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELIT  117 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEE
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEe
Confidence            3444 58999999999999999999885433233344433

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.50  E-value=0.013  Score=43.73  Aligned_cols=22  Identities=23%  Similarity=0.507  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|.+|+|||+++..+...-
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999988753

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.48  E-value=0.0065  Score=47.35  Aligned_cols=27  Identities=26%  Similarity=0.373  Sum_probs=23.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNY   75 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~   75 (331)
                      +.|.|++|+||||.++.+++.+...+.
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L~~~g~   31 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETLEQLGI   31 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCC
Confidence            689999999999999999998865543

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.45  E-value=0.0045  Score=47.08  Aligned_cols=24  Identities=25%  Similarity=0.351  Sum_probs=21.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .++|.||+|+||+++.+.+.+...
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~~   28 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKHP   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             cEEEECCCCCCHHHHHHHHHHhCC
Confidence            379999999999999999998753

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.42  E-value=0.0064  Score=45.63  Aligned_cols=21  Identities=43%  Similarity=0.521  Sum_probs=17.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||+++..+...
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999887654

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.39  E-value=0.014  Score=43.45  Aligned_cols=23  Identities=22%  Similarity=0.548  Sum_probs=20.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|.+|+|||+++..+...-.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~f   28 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGIF   28 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCCC
Confidence            79999999999999999987643

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.37  E-value=0.019  Score=42.73  Aligned_cols=21  Identities=29%  Similarity=0.536  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||++++.+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999988754

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.36  E-value=0.02  Score=42.82  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         9 I~vvG~~~vGKSSli~~~~~~~   30 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTNK   30 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999887743

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.35  E-value=0.0053  Score=47.95  Aligned_cols=23  Identities=17%  Similarity=0.267  Sum_probs=20.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +-+.|++|+||||+++.+++.+.
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            46999999999999999999874

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.33  E-value=0.013  Score=43.68  Aligned_cols=21  Identities=24%  Similarity=0.501  Sum_probs=18.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|.+|+|||+++..+...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999988764

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.29  E-value=0.034  Score=41.34  Aligned_cols=21  Identities=29%  Similarity=0.575  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||+++..+...
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999988774

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=95.29  E-value=0.088  Score=41.12  Aligned_cols=98  Identities=20%  Similarity=0.212  Sum_probs=49.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc-CC-CC------------CCceEEeecCCCC--ChHhHHHHHHHHHhcccCCCCCCc
Q 020071           49 LILAGPPGTGKTTSILALAHELL-GP-NY------------REAVMELNASDDR--GIDVVRNKIKMFAQKKVTLPPGKH  112 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~-~~-~~------------~~~~~~~~~~~~~--~~~~i~~~i~~~~~~~~~~~~~~~  112 (331)
                      ++++||...|||++.+.++-... .+ ++            +.-+..++..+..  +.......+.......-.  .+++
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~~--~~~~  115 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKE--ATEN  115 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHHHH--CCTT
T ss_pred             EEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHhcc--CCCC
Confidence            69999999999999998876542 11 10            1111222222221  111111111111111100  2457


Q ss_pred             eEEEEeCCCCCCHH-----HHHHHHHHHHHhcCCcEEEEeeCC
Q 020071          113 KVVVLDEADSMTAG-----AQQALRRTMEIYSNSTRFALACNV  150 (331)
Q Consensus       113 ~vviide~d~l~~~-----~~~~Ll~~le~~~~~~~~I~~~~~  150 (331)
                      .+|+|||+.+-+..     ...++++.+.+.  ++.++++|..
T Consensus       116 sLvliDE~~~gT~~~eg~ala~aile~L~~~--~~~~i~tTH~  156 (224)
T d1ewqa2         116 SLVLLDEVGRGTSSLDGVAIATAVAEALHER--RAYTLFATHY  156 (224)
T ss_dssp             EEEEEESTTTTSCHHHHHHHHHHHHHHHHHH--TCEEEEECCC
T ss_pred             cEEeecccccCcchhhhcchHHHHHHHHhhc--CcceEEeeec
Confidence            89999999877532     244556666554  3455666654

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.24  E-value=0.11  Score=37.97  Aligned_cols=51  Identities=16%  Similarity=0.134  Sum_probs=37.2

Q ss_pred             CCCceEEEEeCC------CCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhccccee
Q 020071          109 PGKHKVVVLDEA------DSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAIV  165 (331)
Q Consensus       109 ~~~~~vviide~------d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~i  165 (331)
                      .+.+.+||+||+      ..++.   +.++++++..|..+-+|+|.++.   ++.|..++..+
T Consensus        92 ~~~~dllILDEi~~Ai~~gli~~---~~v~~ll~~rp~~~evVlTGr~~---p~~L~e~ADlV  148 (157)
T d1g5ta_          92 DPLLDMVVLDELTYMVAYDYLPL---EEVISALNARPGHQTVIITGRGC---HRDILDLADTV  148 (157)
T ss_dssp             CTTCSEEEEETHHHHHHTTSSCH---HHHHHHHHTSCTTCEEEEECSSC---CHHHHHHCSEE
T ss_pred             cCccCEEeHHHHHHHHHcCCCCH---HHHHHHHHhCCCCCEEEEECCCC---CHHHHHhccee
Confidence            567899999996      34443   57888888889999999998653   45566655433

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=95.23  E-value=0.026  Score=46.07  Aligned_cols=42  Identities=19%  Similarity=0.039  Sum_probs=32.7

Q ss_pred             cccCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           27 IVGNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        27 ~ig~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.-++.....+..+++.++   .++.-|.|+|||.++-.+++.+.
T Consensus       112 ~~~rdyQ~~av~~~l~~~~---~il~~pTGsGKT~i~~~i~~~~~  153 (282)
T d1rifa_         112 IEPHWYQKDAVFEGLVNRR---RILNLPTSAGRSLIQALLARYYL  153 (282)
T ss_dssp             CCCCHHHHHHHHHHHHHSE---EEECCCTTSCHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHhcCC---ceeEEEcccCccHHHHHHHHHhh
Confidence            4457778888888888754   68888999999988887776553

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=95.21  E-value=0.0088  Score=44.92  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=18.6

Q ss_pred             eEEEeCCCCccHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~   68 (331)
                      .+++.|++|+|||++++.+..
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            389999999999999998764

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.19  E-value=0.008  Score=46.00  Aligned_cols=23  Identities=17%  Similarity=0.375  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+|||+++..+...-.
T Consensus         6 vvllG~~~vGKTSli~r~~~~~f   28 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNKF   28 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCCC
Confidence            78999999999999999887543

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.19  E-value=0.077  Score=41.81  Aligned_cols=22  Identities=36%  Similarity=0.416  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++++||...|||++.+.++-..
T Consensus        44 ~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHHHHH
Confidence            6999999999999999997754

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.19  E-value=0.0044  Score=49.35  Aligned_cols=35  Identities=26%  Similarity=0.250  Sum_probs=26.1

Q ss_pred             HHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHHhc
Q 020071           37 LGIIARDGNMPN--LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        37 l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      |.+.+..|-.+.  ++|+|+||+|||+++..++..+.
T Consensus        23 LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          23 LDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             HHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            444444443332  59999999999999999998764

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.18  E-value=0.012  Score=45.16  Aligned_cols=22  Identities=32%  Similarity=0.644  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         9 ivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHhhCC
Confidence            7999999999999999988653

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=95.15  E-value=0.052  Score=44.29  Aligned_cols=19  Identities=16%  Similarity=0.289  Sum_probs=15.2

Q ss_pred             CCCceEEEEeCCCCCCHHH
Q 020071          109 PGKHKVVVLDEADSMTAGA  127 (331)
Q Consensus       109 ~~~~~vviide~d~l~~~~  127 (331)
                      ..+..++||||+|.+....
T Consensus        98 ~~~~~~vViDE~H~~~~~~  116 (305)
T d2bmfa2          98 VPNYNLIIMDEAHFTDPAS  116 (305)
T ss_dssp             CCCCSEEEEESTTCCSHHH
T ss_pred             ccceeEEEeeeeeecchhh
Confidence            3457899999999997654

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.14  E-value=0.044  Score=43.86  Aligned_cols=52  Identities=12%  Similarity=0.191  Sum_probs=35.0

Q ss_pred             CCceEEEEeCC-CCCCHHHHHHHHHHHHHh-cCCcEEEEeeCCCCCCChhhhccc
Q 020071          110 GKHKVVVLDEA-DSMTAGAQQALRRTMEIY-SNSTRFALACNVSSKIIEPIQSRC  162 (331)
Q Consensus       110 ~~~~vviide~-d~l~~~~~~~Ll~~le~~-~~~~~~I~~~~~~~~l~~~l~sr~  162 (331)
                      .+++++++||. -.+.......+.+.+.+. ..++.+|+++.+.+.+. .+-+|.
T Consensus       167 ~~P~llilDEPt~gLD~~~~~~i~~~i~~l~~~g~til~vsHdl~~~~-~~~Drv  220 (254)
T d1g6ha_         167 TNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHRLDIVL-NYIDHL  220 (254)
T ss_dssp             TCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEECSCCSTTG-GGCSEE
T ss_pred             hCcCchhhcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCcHHHHH-HhCCEE
Confidence            46899999996 466777777777777654 24567777877766554 334443

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=95.10  E-value=0.093  Score=41.93  Aligned_cols=34  Identities=18%  Similarity=0.349  Sum_probs=24.4

Q ss_pred             HHHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHH
Q 020071           36 RLGIIARDGNMPN--LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        36 ~l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .+...++......  ++|.|.+|+|||++...+...
T Consensus        20 e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          20 ELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            3444444433223  899999999999999999764

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.09  E-value=0.0043  Score=49.04  Aligned_cols=33  Identities=24%  Similarity=0.327  Sum_probs=23.2

Q ss_pred             HHHHHHcCCCCe--EEEeCCCCccHHHHHHHHHHH
Q 020071           37 LGIIARDGNMPN--LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        37 l~~~l~~~~~~~--~ll~G~~G~GKt~la~~l~~~   69 (331)
                      |.+.+.+|-.+.  ++|+|+||+|||+++..++..
T Consensus        15 LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          15 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            344444443333  699999999999999876643

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.07  E-value=0.036  Score=41.04  Aligned_cols=23  Identities=22%  Similarity=0.485  Sum_probs=20.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|.+|+|||++++.+...-.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~f   29 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDSF   29 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCCC
Confidence            78999999999999999987543

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.04  E-value=0.012  Score=45.56  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      +.|.|..|+||||+++.+.+.+...
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            5789999999999999999988654

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.02  E-value=0.022  Score=42.53  Aligned_cols=22  Identities=27%  Similarity=0.514  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHcCC
Confidence            7999999999999999987643

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.89  E-value=0.0049  Score=47.42  Aligned_cols=27  Identities=26%  Similarity=0.363  Sum_probs=23.0

Q ss_pred             CCCe-EEEeCCCCccHHHHHHHHHHHhc
Q 020071           45 NMPN-LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        45 ~~~~-~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .-|- +.|.|+.|+||||+++.+++.+.
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l~   34 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYKN   34 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGTT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3344 69999999999999999999873

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=94.76  E-value=0.05  Score=42.82  Aligned_cols=41  Identities=17%  Similarity=0.321  Sum_probs=28.6

Q ss_pred             CceEEEEeCC-CCCCHHHHHHHHHHHHHh-cCCcEEEEeeCCC
Q 020071          111 KHKVVVLDEA-DSMTAGAQQALRRTMEIY-SNSTRFALACNVS  151 (331)
Q Consensus       111 ~~~vviide~-d~l~~~~~~~Ll~~le~~-~~~~~~I~~~~~~  151 (331)
                      +++++++||. ..+.......+.+++.+. ..++.+|+++.+.
T Consensus       150 ~p~llllDEPt~gLD~~~~~~i~~~i~~l~~~g~tii~vtHdl  192 (231)
T d1l7vc_         150 AGQLLLLDEPMNSLDVAQQSALDKILSALCQQGLAIVMSSHDL  192 (231)
T ss_dssp             TCCEEEESSCSTTCCHHHHHHHHHHHHHHHHTTCEEEECCCCH
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEeCCH
Confidence            4589999995 566777777777777754 2455677776653

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.76  E-value=0.0092  Score=46.13  Aligned_cols=24  Identities=38%  Similarity=0.740  Sum_probs=21.5

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      |.++|.|++|+|||++...+...-
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            569999999999999999998753

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.73  E-value=0.046  Score=40.51  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988754

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=94.66  E-value=0.0094  Score=44.91  Aligned_cols=21  Identities=29%  Similarity=0.675  Sum_probs=19.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++|.|++|+|||++|..+.+.
T Consensus        17 vl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          17 VLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHc
Confidence            899999999999999998874

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=94.57  E-value=0.01  Score=46.96  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|++|+||||+...+.+.+.
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Confidence            58999999999999999998763

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.56  E-value=0.013  Score=46.07  Aligned_cols=34  Identities=21%  Similarity=0.300  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHH
Q 020071           33 AVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        33 ~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      -+..|+..+++ +  ..+|.|++|+|||+++.++...
T Consensus        85 g~~~L~~~l~~-k--t~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          85 GIEELKEYLKG-K--ISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             THHHHHHHHSS-S--EEEEECSTTSSHHHHHHHHSTT
T ss_pred             hHhhHHHHhcC-C--eEEEECCCCCCHHHHHHhhcch
Confidence            35566666643 2  3699999999999999988654

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.50  E-value=0.049  Score=42.31  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=22.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      -+.|.|+.|+||||.++.+++.+.
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHH
Confidence            379999999999999999999984

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=94.44  E-value=0.07  Score=39.50  Aligned_cols=21  Identities=29%  Similarity=0.578  Sum_probs=18.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +.+.|++|+|||++++++...
T Consensus         3 V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999743

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.35  E-value=0.029  Score=41.54  Aligned_cols=22  Identities=23%  Similarity=0.569  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         5 i~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999988753

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=94.35  E-value=0.012  Score=43.38  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|.+|+|||++.+.+...-
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7999999999999999997753

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.29  E-value=0.049  Score=40.53  Aligned_cols=22  Identities=32%  Similarity=0.650  Sum_probs=8.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|.+|+|||+++..+...-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSEDA   30 (173)
T ss_dssp             EEEECCCCC-------------
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999887543

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=94.28  E-value=0.014  Score=43.79  Aligned_cols=21  Identities=33%  Similarity=0.510  Sum_probs=19.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++|.|++|+|||++...+...
T Consensus        16 I~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          16 LVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEETTSSHHHHHHHHSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999988654

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=94.24  E-value=0.012  Score=45.01  Aligned_cols=25  Identities=36%  Similarity=0.663  Sum_probs=21.7

Q ss_pred             CCCCeEEEeCCCCccHHHHHHHHHH
Q 020071           44 GNMPNLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        44 ~~~~~~ll~G~~G~GKt~la~~l~~   68 (331)
                      +..|.+.|.|++|+||||+...+..
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            3456799999999999999999974

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.21  E-value=0.014  Score=42.81  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|++|+|||+++..+...-
T Consensus         3 I~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7999999999999999998753

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=94.17  E-value=0.009  Score=45.02  Aligned_cols=21  Identities=33%  Similarity=0.653  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++|.|++|+|||++|..+.+.
T Consensus        18 vli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          18 VLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHHc
Confidence            899999999999999988764

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.10  E-value=0.038  Score=44.99  Aligned_cols=23  Identities=26%  Similarity=0.716  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +-|.|++|+||||++..+...+.
T Consensus        30 IGi~G~qGSGKSTl~~~l~~~L~   52 (286)
T d1odfa_          30 IFFSGPQGSGKSFTSIQIYNHLM   52 (286)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999998887763

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=94.04  E-value=0.012  Score=43.96  Aligned_cols=21  Identities=29%  Similarity=0.642  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++|.|++|+|||+++..+.+.
T Consensus        18 vli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          18 VLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHc
Confidence            899999999999999888875

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=93.79  E-value=0.028  Score=46.06  Aligned_cols=18  Identities=28%  Similarity=0.405  Sum_probs=14.8

Q ss_pred             eEEEeCCCCccHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILA   65 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~   65 (331)
                      ++++.|+||+|||+++-.
T Consensus        16 ~~lI~g~aGTGKTt~l~~   33 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVITN   33 (306)
T ss_dssp             EEEECCCTTSCHHHHHHH
T ss_pred             CEEEEeeCCccHHHHHHH
Confidence            489999999999976543

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.79  E-value=0.019  Score=42.66  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|.+|+|||+++..+...-
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999988744

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=93.74  E-value=0.048  Score=44.93  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=17.0

Q ss_pred             eEEEeCCCCccHHHHHH-HHHHHh
Q 020071           48 NLILAGPPGTGKTTSIL-ALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~-~l~~~l   70 (331)
                      ++++.|++|+|||+++- .+++.+
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll   49 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLM   49 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHHHHH
Confidence            48999999999997554 444444

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.73  E-value=0.017  Score=45.78  Aligned_cols=24  Identities=25%  Similarity=0.299  Sum_probs=22.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +.|.|+.|+||||+++.+++.+..
T Consensus         5 IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           5 LSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhh
Confidence            699999999999999999999854

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.72  E-value=0.02  Score=42.65  Aligned_cols=22  Identities=23%  Similarity=0.454  Sum_probs=20.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999998754

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=93.69  E-value=0.029  Score=43.22  Aligned_cols=21  Identities=24%  Similarity=0.324  Sum_probs=17.0

Q ss_pred             eEEEeCCCCccHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~   68 (331)
                      ++++.-|+|+|||.+......
T Consensus        42 ~vlv~apTGsGKT~~~~~~~~   62 (206)
T d1oywa2          42 DCLVVMPTGGGKSLCYQIPAL   62 (206)
T ss_dssp             CEEEECSCHHHHHHHHHHHHH
T ss_pred             CEEEEcCCCCCCcchhhhhhh
Confidence            599999999999987654443

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=93.59  E-value=0.009  Score=48.80  Aligned_cols=27  Identities=19%  Similarity=0.342  Sum_probs=20.1

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCC
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGP   73 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~   73 (331)
                      |-+-++|++|+||||+++.+.+.+...
T Consensus         5 pIIgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           5 PIISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             CEEEEESCC---CCTHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            447999999999999999999887543

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.43  E-value=0.021  Score=43.20  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=18.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|++|+|||+++..+...
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            799999999999999988753

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=93.43  E-value=0.097  Score=43.38  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=19.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|-|+-|+||||+++.+++.+.
T Consensus         7 I~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           7 VYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEECSCTTSSHHHHHHHHTC---
T ss_pred             EEEECCcCCCHHHHHHHHHHHhC
Confidence            68999999999999999998763

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.39  E-value=0.024  Score=41.85  Aligned_cols=22  Identities=23%  Similarity=0.330  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|.+|+|||+++..+...-
T Consensus         5 v~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999998753

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.34  E-value=0.025  Score=42.77  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.2

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +++.|.+|+|||+++..+...
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999998864

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.32  E-value=0.01  Score=47.04  Aligned_cols=24  Identities=21%  Similarity=0.235  Sum_probs=21.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      -+.|.|+.|+||||+++.+++.+.
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            379999999999999999999874

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.29  E-value=0.019  Score=44.25  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.|.||.|+||||+.+.++..+.
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEECCCCChHHHHHHHHhcccc
Confidence            68999999999999999988663

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=93.17  E-value=0.032  Score=45.45  Aligned_cols=38  Identities=29%  Similarity=0.391  Sum_probs=27.9

Q ss_pred             CCe-EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEee
Q 020071           46 MPN-LILAGPPGTGKTTSILALAHELLGPNYREAVMELN   83 (331)
Q Consensus        46 ~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   83 (331)
                      .|. ++++|.-|+||||++-.++..+...+...-.+..+
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            455 69999999999999999999886654443333333

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=92.94  E-value=0.067  Score=43.13  Aligned_cols=40  Identities=28%  Similarity=0.248  Sum_probs=28.6

Q ss_pred             HHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCC
Q 020071           37 LGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYR   76 (331)
Q Consensus        37 l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~   76 (331)
                      +...+..+...-++++|.-|+||||++-.++..+...+..
T Consensus        11 ~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~r   50 (279)
T d1ihua2          11 LVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFD   50 (279)
T ss_dssp             HHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCc
Confidence            3444444442236999999999999999999988765443

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.91  E-value=0.025  Score=41.90  Aligned_cols=22  Identities=14%  Similarity=0.295  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         7 v~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999987643

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=92.91  E-value=0.032  Score=42.40  Aligned_cols=20  Identities=30%  Similarity=0.429  Sum_probs=17.5

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      +-++|++|+||||+|..+.+
T Consensus         6 IgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           6 IGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            46899999999999998854

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.90  E-value=0.031  Score=41.90  Aligned_cols=22  Identities=23%  Similarity=0.637  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|.+|+|||+++..+...-
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7999999999999999988643

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=92.77  E-value=0.028  Score=45.40  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      .+|+|++|+|||+++..++..+.
T Consensus        32 ~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            59999999999999999988764

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.74  E-value=0.32  Score=35.73  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=19.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +.|.|.+|+|||++..++.+.
T Consensus         8 I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999863

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=92.67  E-value=0.098  Score=48.06  Aligned_cols=59  Identities=17%  Similarity=0.231  Sum_probs=43.5

Q ss_pred             CCchhhhcCCCCCCccccCHHHHH--HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           12 DIPWVEKYRPTKVCDIVGNLDAVA--RLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        12 ~~~~~~~~~p~~~~~~ig~~~~~~--~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.-+..+|+.....++--|--.+.  ....+...+..-.+++.|++|+|||..++.+.+.+
T Consensus        50 ~~~~~~~y~~~~~~~~~PHif~iA~~Ay~~l~~~~~~QsIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          50 KESDIKAYNGRYKYEMPPHMYALANDAYRSMRQSQENQCVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             SHHHHHHHSSCCGGGSCCCHHHHHHHHHHHHHHHCCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CHHHHHHHcCCCCCCCCChHHHHHHHHHHHHHHcCCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            334677888776666666655553  45566666654449999999999999999999987

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.62  E-value=0.034  Score=41.47  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      ++|.|.+|+|||+++..+...
T Consensus         6 v~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            799999999999999988753

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=92.49  E-value=0.055  Score=43.67  Aligned_cols=22  Identities=23%  Similarity=0.373  Sum_probs=19.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++|.|+||+|||+++..++..+
T Consensus        38 ~vi~G~~G~GKT~~~~~la~~~   59 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQALQW   59 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHhh
Confidence            5999999999999999998654

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=92.37  E-value=0.029  Score=41.91  Aligned_cols=20  Identities=40%  Similarity=0.541  Sum_probs=18.2

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      +++.|++|+|||+++..+..
T Consensus        19 I~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEESTTSSHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            89999999999999988754

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=92.29  E-value=0.025  Score=44.77  Aligned_cols=22  Identities=27%  Similarity=0.289  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +-|.||+|+||||+++.++...
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHcCCc
Confidence            7999999999999999998755

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=92.23  E-value=0.026  Score=44.71  Aligned_cols=23  Identities=35%  Similarity=0.453  Sum_probs=20.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +.+.||+|+||||+.+.++....
T Consensus        34 ~~iiG~sGsGKSTll~~i~gl~~   56 (242)
T d1oxxk2          34 FGILGPSGAGKTTFMRIIAGLDV   56 (242)
T ss_dssp             EEEECSCHHHHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHHcCcC
Confidence            79999999999999999998653

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.21  E-value=0.55  Score=39.88  Aligned_cols=21  Identities=33%  Similarity=0.558  Sum_probs=19.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~   68 (331)
                      ++.+.|.+|+|||++..++..
T Consensus        58 ~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          58 NVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999974

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.12  E-value=0.034  Score=41.74  Aligned_cols=22  Identities=27%  Similarity=0.526  Sum_probs=19.6

Q ss_pred             CeEEEeCCCCccHHHHHHHHHH
Q 020071           47 PNLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~   68 (331)
                      +.+.|.|.+|+|||+++..+..
T Consensus         2 ~~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           2 ADVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5688999999999999999864

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=92.09  E-value=0.032  Score=41.92  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=19.5

Q ss_pred             eEEEeCCCCccHHHHHHHHHHH
Q 020071           48 NLILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~   69 (331)
                      .++|.|++|+|||++..++...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3799999999999999999753

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=91.92  E-value=0.14  Score=47.24  Aligned_cols=57  Identities=18%  Similarity=0.327  Sum_probs=41.7

Q ss_pred             chhhhcCCCCCCccccCHHHHH--HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVA--RLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~--~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      -+...|+.....++--|--.+.  ..+.++..+.--.+++.|++|+|||..++.+.+.+
T Consensus        91 ~~~~~y~~~~~~~~~PHifaiA~~Ay~~m~~~~~nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2          91 EMVDIFKGRRRNEVAPHIFAISDVAYRSMLDDRQNQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             HHHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCcCCCCCcHHHHHHHHHHHHHHhCCCceEEEeCCCCCCHHHHHHHHHHHH
Confidence            3566777766666666654543  44566666654449999999999999999998877

>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Helicase of the SNF2/Rad54 hamily
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=91.89  E-value=0.18  Score=39.23  Aligned_cols=113  Identities=18%  Similarity=0.200  Sum_probs=59.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhccc-----------------------
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKV-----------------------  105 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~-----------------------  105 (331)
                      .+|.=+.|.|||..+-+++..+........+..+.+..  -..++.+.+..+.....                       
T Consensus        34 ~iLaDe~GlGKT~~~i~~~~~~~~~~~~~~~LIv~p~~--l~~~W~~e~~~~~~~~~~~~~~~~~~~~~~~~~~vvi~~~  111 (230)
T d1z63a1          34 ICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLS--VLKNWEEELSKFAPHLRFAVFHEDRSKIKLEDYDIILTTY  111 (230)
T ss_dssp             EEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECST--THHHHHHHHHHHCTTSCEEECSSSTTSCCGGGSSEEEEEH
T ss_pred             EEEEeCCCCChHHHHHHhhhhhhhcccccccceecchh--hhhHHHHHHHhhcccccceeeccccchhhccCcCEEEeeH
Confidence            68888999999998888877665433333333333322  12334333332221100                       


Q ss_pred             -------CCCCCCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCCCCChhhhcccce
Q 020071          106 -------TLPPGKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSSKIIEPIQSRCAI  164 (331)
Q Consensus       106 -------~~~~~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~~l~~~l~sr~~~  164 (331)
                             .....+...||+||++.+...... -.+.+.......+++++++....=+..+.+.+..
T Consensus       112 ~~~~~~~~l~~~~~~~vI~DEah~~k~~~s~-~~~~~~~l~a~~r~~LTgTPi~n~~~dl~~ll~~  176 (230)
T d1z63a1         112 AVLLRDTRLKEVEWKYIVIDEAQNIKNPQTK-IFKAVKELKSKYRIALTGTPIENKVDDLWSIMTF  176 (230)
T ss_dssp             HHHTTCHHHHTCCEEEEEEETGGGGSCTTSH-HHHHHHTSCEEEEEEECSSCSTTCHHHHHHHHHH
T ss_pred             HHHHhHHHHhcccceEEEEEhhhcccccchh-hhhhhhhhccceEEEEecchHHhHHHHHHHHHHh
Confidence                   000235678999999988432211 1222333345567778776654444444444333

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.59  E-value=0.12  Score=40.16  Aligned_cols=29  Identities=21%  Similarity=0.172  Sum_probs=22.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYRE   77 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~   77 (331)
                      +++.|.+|+|||++++.+...-..+..+.
T Consensus         9 illlG~~~vGKTsll~~~~~~~~~pTiG~   37 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRILHVVLTSGI   37 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCCCCSC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCcCCCCCe
Confidence            89999999999999999865544333333

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=91.50  E-value=0.057  Score=41.66  Aligned_cols=20  Identities=40%  Similarity=0.539  Sum_probs=17.5

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      +-++|+.|+||||+++.|.+
T Consensus         6 IgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHHH
Confidence            46899999999999998764

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=91.44  E-value=0.044  Score=43.91  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=19.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +-|.||+|+||||+++.++...
T Consensus        31 ~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          31 ISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHHcCc
Confidence            7999999999999999998644

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=91.33  E-value=0.11  Score=37.35  Aligned_cols=35  Identities=14%  Similarity=0.225  Sum_probs=22.6

Q ss_pred             CCceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEe
Q 020071          110 GKHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALA  147 (331)
Q Consensus       110 ~~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~  147 (331)
                      ....+|+|||++.++......+.. +.+.  +..+++.
T Consensus        79 ~~~dvI~IDE~QFf~d~~~~~~~~-l~~~--g~~Viv~  113 (141)
T d1xx6a1          79 EDTEVIAIDEVQFFDDEIVEIVNK-IAES--GRRVICA  113 (141)
T ss_dssp             TTCSEEEECSGGGSCTHHHHHHHH-HHHT--TCEEEEE
T ss_pred             ccccEEEEeehhhccccHHHHHHh-heeC--CcEEEEE
Confidence            346899999999998765555544 4443  3344444

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=91.33  E-value=0.03  Score=42.14  Aligned_cols=19  Identities=37%  Similarity=0.649  Sum_probs=17.5

Q ss_pred             EEEeCCCCccHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALA   67 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~   67 (331)
                      +++.|++|+|||+++..+.
T Consensus        20 I~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          20 ILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             EEEEEETTSSHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            8999999999999998774

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.27  E-value=0.086  Score=39.36  Aligned_cols=22  Identities=23%  Similarity=0.253  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|++|+|||+++..+...-
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7999999999999999888754

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.26  E-value=0.061  Score=42.34  Aligned_cols=34  Identities=26%  Similarity=0.251  Sum_probs=23.1

Q ss_pred             HHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           35 ARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        35 ~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ..+...+ .|+  ++++.+|+|+|||.++...+....
T Consensus        50 ~~i~~~l-~g~--~~~i~apTGsGKT~~~~~~~~~~~   83 (237)
T d1gkub1          50 MWAKRIL-RKE--SFAATAPTGVGKTSFGLAMSLFLA   83 (237)
T ss_dssp             HHHHHHH-TTC--CEECCCCBTSCSHHHHHHHHHHHH
T ss_pred             HHHHHHH-CCC--CEEEEecCCChHHHHHHHHHHHHH
Confidence            3344444 343  589999999999987766655443

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=91.02  E-value=0.2  Score=46.19  Aligned_cols=57  Identities=19%  Similarity=0.322  Sum_probs=40.5

Q ss_pred             hhhhcCCCCCCccccCHHHHH--HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           15 WVEKYRPTKVCDIVGNLDAVA--RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~--~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +...|+-....++--|--.+.  ..+.++..+..-.+++.|++|+|||...+.+.+.+.
T Consensus        58 ~~~~y~~~~~~~~~PHif~vA~~Ay~~m~~~~~~Q~IiisGeSGaGKTe~~k~il~yL~  116 (710)
T d1br2a2          58 IIDMYKGKKRHEMPPHIYAIADTAYRSMLQDREDQSILCTGESGAGKTENTKKVIQYLA  116 (710)
T ss_dssp             HHHHTTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCCChHHHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            456666666666655554443  445556666544499999999999999999998873

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=91.01  E-value=0.049  Score=40.95  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=19.1

Q ss_pred             CeEEEeCCCCccHHHHHHHHHH
Q 020071           47 PNLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~   68 (331)
                      +.|-|.|++++|||++..++..
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEE
T ss_pred             CeEEEECCCCCCHHHHHHHHhC
Confidence            4588999999999999998854

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.98  E-value=0.23  Score=35.06  Aligned_cols=92  Identities=14%  Similarity=0.143  Sum_probs=44.2

Q ss_pred             EEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCC-CChHhHHHHHH-HHHhcccCC------CCCCceEEEEeCCC
Q 020071           50 ILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDD-RGIDVVRNKIK-MFAQKKVTL------PPGKHKVVVLDEAD  121 (331)
Q Consensus        50 ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~-~~~~~i~~~i~-~~~~~~~~~------~~~~~~vviide~d  121 (331)
                      +++||=.+|||+-....+......  +..++.+++... +....+...-. .........      ...+..+|+|||++
T Consensus         6 li~GpMfsGKTt~Li~~~~~~~~~--g~~v~~ikp~~D~R~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~I~IDEaQ   83 (133)
T d1xbta1           6 VILGPMFSGKSTELMRRVRRFQIA--QYKCLVIKYAKDTRYSSSFCTHDRNTMEALPACLLRDVAQEALGVAVIGIDEGQ   83 (133)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHTT--TCCEEEEEETTCCC--------------CEEESSGGGGHHHHHTCSEEEESSGG
T ss_pred             EEEecccCHHHHHHHHHHHHHHHc--CCcEEEEecccccCCcceeeecCCCcceeeeeechhhhhhhhcccceEEeehhH
Confidence            889999999998555554444322  334555554322 11111000000 000000000      01236799999999


Q ss_pred             CCCHHHHHHHHHHHHHhcCCcEEEEe
Q 020071          122 SMTAGAQQALRRTMEIYSNSTRFALA  147 (331)
Q Consensus       122 ~l~~~~~~~Ll~~le~~~~~~~~I~~  147 (331)
                      .+. + ...+.+.+.+.  +..+++.
T Consensus        84 Ff~-d-l~~~~~~~~~~--~~~Viv~  105 (133)
T d1xbta1          84 FFP-D-IVEFCEAMANA--GKTVIVA  105 (133)
T ss_dssp             GCT-T-HHHHHHHHHHT--TCEEEEE
T ss_pred             HHH-H-HHHHHHHHHhc--CCcEEEE
Confidence            996 3 34455666553  3445554

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=90.94  E-value=0.067  Score=42.13  Aligned_cols=22  Identities=23%  Similarity=0.351  Sum_probs=20.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +-|+|+.|+||||+|+.|++.+
T Consensus         4 IgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            5799999999999999998865

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.86  E-value=0.062  Score=40.78  Aligned_cols=18  Identities=28%  Similarity=0.532  Sum_probs=17.4

Q ss_pred             EEEeCCCCccHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILAL   66 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l   66 (331)
                      +++.|.+|+|||+++..+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            799999999999999999

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=90.84  E-value=0.064  Score=46.32  Aligned_cols=37  Identities=24%  Similarity=0.359  Sum_probs=27.1

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecC
Q 020071           47 PNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNAS   85 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~   85 (331)
                      .|+++.|++|+|||+++..+...+...  +..++.+++.
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~--g~~~iiiD~k   87 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLR--GDRMVIVDPN   87 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHT--TCEEEEEEET
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhC--CCCEEEEeCC
Confidence            379999999999999988777665443  3445555543

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=90.84  E-value=0.2  Score=46.32  Aligned_cols=57  Identities=26%  Similarity=0.337  Sum_probs=40.8

Q ss_pred             chhhhcCCCCCCccccCHHHHH--HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           14 PWVEKYRPTKVCDIVGNLDAVA--RLGIIARDGNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        14 ~~~~~~~p~~~~~~ig~~~~~~--~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      -+...|+-....++--|--.+.  ....++..+..-.+++.|++|+|||..++.+.+.+
T Consensus        60 ~~~~~y~~~~~~~~~PHif~vA~~Ay~~l~~~~~~Q~IiisGeSGsGKTe~~k~il~~l  118 (730)
T d1w7ja2          60 DIINAYSGQNMGDMDPHIFAVAEEAYKQMARDERNQSIIVSGESGAGKTVSAKYAMRYF  118 (730)
T ss_dssp             HHHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCcCCCCCcHHHHHHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4566777666666655544443  45555666654448999999999999999998876

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=90.74  E-value=0.035  Score=41.61  Aligned_cols=24  Identities=21%  Similarity=0.389  Sum_probs=20.1

Q ss_pred             CCCeEEEeCCCCccHHHHHHHHHH
Q 020071           45 NMPNLILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        45 ~~~~~ll~G~~G~GKt~la~~l~~   68 (331)
                      ..+.+.|.|.+++|||++.+++..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            345699999999999999988844

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=90.72  E-value=0.037  Score=42.05  Aligned_cols=24  Identities=33%  Similarity=0.563  Sum_probs=21.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      .+|+||.|+|||++..++.-.+.+
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~g   50 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALIP   50 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Confidence            389999999999999999988754

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=90.62  E-value=0.063  Score=41.28  Aligned_cols=20  Identities=35%  Similarity=0.391  Sum_probs=17.2

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      +-++|+.|+||||+++.+.+
T Consensus         5 IgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            45899999999999998853

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=90.55  E-value=0.21  Score=46.63  Aligned_cols=56  Identities=18%  Similarity=0.298  Sum_probs=39.9

Q ss_pred             hhhcCCCCCCccccCHHHHH--HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           16 VEKYRPTKVCDIVGNLDAVA--RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        16 ~~~~~p~~~~~~ig~~~~~~--~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ...|+-....++--|--.+.  ....++..+..-.+++.|++|+|||..++.+.+.+.
T Consensus        91 ~~~y~~~~~~~~pPHifaiA~~Ay~~m~~~~~~QsIiisGeSGaGKTe~~K~il~yL~  148 (794)
T d2mysa2          91 VLAYRGKKRQEAPPHIFSISDNAYQFMLTDRENQSILITGESGAGKTVNTKRVIQYFA  148 (794)
T ss_dssp             HHHTTTCCTTSSCSCHHHHHHHHHHHHHHHTCCEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCCCcHHHHHHHHHHHHHHcCCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            35666556666655655553  456666666644499999999999999999988773

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=90.10  E-value=0.21  Score=46.60  Aligned_cols=57  Identities=25%  Similarity=0.325  Sum_probs=40.9

Q ss_pred             hhhhcCCCCCCccccCHHHHH--HHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhc
Q 020071           15 WVEKYRPTKVCDIVGNLDAVA--RLGIIARDGNMPNLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        15 ~~~~~~p~~~~~~ig~~~~~~--~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ..++|+.....++--|--.+.  ....+...+..-.+++.|++|+|||..++.+.+.+.
T Consensus        88 ~~~~y~~~~~~~~~PHiyavA~~Ay~~m~~~~~nQ~IiisGESGaGKTe~~K~il~yL~  146 (789)
T d1kk8a2          88 VIAKYRGKRKTEIPPHLFSVADNAYQNMVTDRENQSCLITGESGAGKTENTKKVIMYLA  146 (789)
T ss_dssp             HHHHHTTCCGGGSCCCHHHHHHHHHHHHHHHTSEEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCCCcHHHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            456777666666655654443  556666666533389999999999999999988774

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=90.07  E-value=0.086  Score=39.48  Aligned_cols=21  Identities=29%  Similarity=0.536  Sum_probs=19.0

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +.|.|.+|+|||+++.++...
T Consensus        11 V~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
Confidence            799999999999999998753

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=89.86  E-value=0.12  Score=41.27  Aligned_cols=36  Identities=22%  Similarity=0.266  Sum_probs=28.7

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      +.|+|.-|+||||++-.++..+...+...-++.++.
T Consensus         4 Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~   39 (269)
T d1cp2a_           4 VAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECT
T ss_pred             EEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            567999999999999999999987765555555553

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.83  E-value=0.058  Score=42.18  Aligned_cols=25  Identities=32%  Similarity=0.424  Sum_probs=21.4

Q ss_pred             CCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           46 MPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        46 ~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +|-.+++|.-|+||||+.+.+.+..
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            4546999999999999999998863

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.74  E-value=1.3  Score=35.46  Aligned_cols=93  Identities=14%  Similarity=0.097  Sum_probs=49.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc----CCCCCCc-eEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCC
Q 020071           49 LILAGPPGTGKTTSILALAHELL----GPNYREA-VMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSM  123 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~----~~~~~~~-~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l  123 (331)
                      +++.|++|+|||+++..++....    +...... ++.+-.-.. ...+..+.++......    .-++.++|.--++.-
T Consensus        71 ~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGe-r~~E~~e~~~~~~~~~----~~~~tvvv~~ts~~~  145 (285)
T d2jdia3          71 ELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQ-KRSTVAQLVKRLTDAD----AMKYTIVVSATASDA  145 (285)
T ss_dssp             CEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESC-CHHHHHHHHHHHHHTT----CGGGEEEEEECTTSC
T ss_pred             EEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCc-cHHHHHHHHHHhcccc----cccceEEEEECCCCC
Confidence            78999999999999887775432    1111111 222222222 2345556666555443    124567777666553


Q ss_pred             CH------HHHHHHHHHHHHhcCCcEEEE
Q 020071          124 TA------GAQQALRRTMEIYSNSTRFAL  146 (331)
Q Consensus       124 ~~------~~~~~Ll~~le~~~~~~~~I~  146 (331)
                      ..      ...-++-+++.+...++.+++
T Consensus       146 ~~~r~~~~~~a~tiAEyfrd~G~~VLll~  174 (285)
T d2jdia3         146 APLQYLAPYSGCSMGEYFRDNGKHALIIY  174 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCcEEEEE
Confidence            32      123345566666555555544

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=89.73  E-value=0.077  Score=44.12  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +.|-|+-|+||||+++.+++.+..
T Consensus         9 I~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           9 IYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEECCccCCHHHHHHHHHHHhcc
Confidence            689999999999999999998853

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.60  E-value=0.086  Score=39.82  Aligned_cols=23  Identities=30%  Similarity=0.278  Sum_probs=20.4

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhc
Q 020071           49 LILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      +++.|..|+|||+++..+...-.
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~~   27 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIHG   27 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCCCC
Confidence            79999999999999999977643

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.59  E-value=0.036  Score=40.58  Aligned_cols=22  Identities=32%  Similarity=0.566  Sum_probs=19.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.|.|.+|+|||+++.++...-
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998753

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=89.18  E-value=0.63  Score=37.40  Aligned_cols=24  Identities=25%  Similarity=0.494  Sum_probs=21.3

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhc
Q 020071           48 NLILAGPPGTGKTTSILALAHELL   71 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~   71 (331)
                      ..++.|++|+|||+++..+++...
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~~~   68 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQSIA   68 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHHHh
Confidence            489999999999999999998663

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=89.15  E-value=0.04  Score=43.25  Aligned_cols=22  Identities=36%  Similarity=0.650  Sum_probs=18.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+|.|++|+||||++.++....
T Consensus       100 ~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2         100 TVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEESHHHHHHHHHHHHCC--
T ss_pred             EEEECCCCccHHHHHHhhccHh
Confidence            5899999999999999887543

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=89.08  E-value=0.3  Score=41.66  Aligned_cols=65  Identities=23%  Similarity=0.291  Sum_probs=48.1

Q ss_pred             cCHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           29 GNLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        29 g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      .|+.+++.|.+.+.+|. .+.++.|-+|+|||.++..+.+..     +.+.+.+.+... ...++.+.+..+
T Consensus        15 DQP~aI~~l~~~l~~g~-~~q~l~GltGS~ka~~iA~l~~~~-----~rp~LVVt~n~~-~A~qL~~dL~~~   79 (413)
T d1t5la1          15 DQPQAIAKLVDGLRRGV-KHQTLLGATGTGKTFTISNVIAQV-----NKPTLVIAHNKT-LAGQLYSELKEF   79 (413)
T ss_dssp             THHHHHHHHHHHHHHTC-SEEEEEECTTSCHHHHHHHHHHHH-----TCCEEEECSSHH-HHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhcCC-CcEEEeCCCCcHHHHHHHHHHHHh-----CCCEEEEeCCHH-HHHHHHHHHHHH
Confidence            47888999999998876 357899999999999999999988     566777765543 233444444443

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.01  E-value=2  Score=34.14  Aligned_cols=96  Identities=11%  Similarity=0.085  Sum_probs=48.9

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccC-CCC-CCceEEEEeCCCCCCH
Q 020071           48 NLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVT-LPP-GKHKVVVLDEADSMTA  125 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~-~~~-~~~~vviide~d~l~~  125 (331)
                      .+++.|++|+|||+++..+++.....+... ++..... . ...+..+.++.+...... ... -.+.++|.--.+.-..
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~~~~~~~~v-~V~~~iG-e-r~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~  146 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINNVAKAHGGY-SVFAGVG-E-RTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPG  146 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTTTCSSE-EEEEEES-C-CHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhhCCCe-EEEEEec-c-ChHHHHHHHHHHHhcCccccccccceEEEEEECCCCCHH
Confidence            389999999999999999988753222111 2222222 2 223455555555543210 011 2355666654544322


Q ss_pred             ------HHHHHHHHHHH-HhcCCcEEEE
Q 020071          126 ------GAQQALRRTME-IYSNSTRFAL  146 (331)
Q Consensus       126 ------~~~~~Ll~~le-~~~~~~~~I~  146 (331)
                            ...-++-+++. +...++.+++
T Consensus       147 ~r~~~~~~a~~iAEyf~~~~G~~VLv~~  174 (276)
T d2jdid3         147 ARARVALTGLTVAEYFRDQEGQDVLLFI  174 (276)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCSCEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence                  12223445554 3344554444

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=88.86  E-value=0.13  Score=38.59  Aligned_cols=22  Identities=27%  Similarity=0.365  Sum_probs=19.6

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +++.|..|+|||++++.+...-
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            7999999999999999987653

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=88.44  E-value=0.077  Score=44.10  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=21.9

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcC
Q 020071           49 LILAGPPGTGKTTSILALAHELLG   72 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~   72 (331)
                      +.|-|+-|+||||+++.+++.+..
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            689999999999999999998854

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=87.73  E-value=3.6  Score=30.64  Aligned_cols=22  Identities=32%  Similarity=0.264  Sum_probs=19.5

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      +.+.|-.+.||||++.++...+
T Consensus         6 i~iiGHvd~GKSTL~~~l~~~~   27 (196)
T d1d2ea3           6 VGTIGHVDHGKTTLTAAITKIL   27 (196)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHHH
Confidence            7999999999999999997643

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=87.58  E-value=2.1  Score=33.84  Aligned_cols=23  Identities=39%  Similarity=0.460  Sum_probs=19.8

Q ss_pred             eEEEeCCCCccHHHHHHHHHHHh
Q 020071           48 NLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++.+.|..|.||||++.++....
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHc
Confidence            58889999999999999996543

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=87.51  E-value=2.7  Score=30.62  Aligned_cols=20  Identities=35%  Similarity=0.278  Sum_probs=18.5

Q ss_pred             EEEeCCCCccHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAH   68 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~   68 (331)
                      +-+.|.+++||||+..++.+
T Consensus         8 IaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           8 LGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            78999999999999999975

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=87.30  E-value=0.18  Score=40.79  Aligned_cols=36  Identities=19%  Similarity=0.258  Sum_probs=27.3

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      +.++|.-|+||||++-.++..+...+...-++.+++
T Consensus         5 IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~Dp   40 (289)
T d2afhe1           5 CAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDP   40 (289)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCC
Confidence            567999999999999999998876655444455543

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.20  E-value=0.11  Score=42.38  Aligned_cols=22  Identities=32%  Similarity=0.551  Sum_probs=19.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHh
Q 020071           49 LILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      -+|+||.|+|||++..++.-.+
T Consensus        27 nvlvG~NgsGKS~iL~Ai~~~l   48 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIKWVF   48 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            3999999999999999986644

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.08  E-value=0.51  Score=32.48  Aligned_cols=36  Identities=11%  Similarity=0.061  Sum_probs=27.1

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeec
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNA   84 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   84 (331)
                      ++|.|-.|+||+++|+++...++.-..+.++--+++
T Consensus         9 i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~   44 (122)
T d1g8fa3           9 IVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEH   44 (122)
T ss_dssp             EEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCC
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecC
Confidence            799999999999999999998875322334444443

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.06  E-value=0.18  Score=42.86  Aligned_cols=23  Identities=35%  Similarity=0.647  Sum_probs=20.1

Q ss_pred             eE-EEeCCCCccHHHHHHHHHHHh
Q 020071           48 NL-ILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        48 ~~-ll~G~~G~GKt~la~~l~~~l   70 (331)
                      ++ +|+||.|+|||++..++.-.+
T Consensus        26 ~l~~i~G~NGsGKS~ileAi~~~l   49 (427)
T d1w1wa_          26 NFTSIIGPNGSGKSNMMDAISFVL   49 (427)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            45 999999999999999997654

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=86.80  E-value=0.9  Score=36.26  Aligned_cols=90  Identities=18%  Similarity=0.148  Sum_probs=46.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHHHhcccCCCCCCceEEEEeCCCCCC----
Q 020071           49 LILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMFAQKKVTLPPGKHKVVVLDEADSMT----  124 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~~~~vviide~d~l~----  124 (331)
                      +++.|++|+|||+++..+......+  ...++......  ...+..+.++.......    -++.++|.--.|.-.    
T Consensus        70 ~~Ifg~~g~GKt~l~~~~~~~~~~~--~~v~V~~~iGe--r~~Ev~e~~~~~~~~~~----~~~tvvv~~tsd~p~~~r~  141 (276)
T d1fx0a3          70 ELIIGDRQTGKTAVATDTILNQQGQ--NVICVYVAIGQ--KASSVAQVVTNFQERGA----MEYTIVVAETADSPATLQY  141 (276)
T ss_dssp             CBEEESSSSSHHHHHHHHHHTCCTT--TCEEEEEEESC--CHHHHHHHHHHTGGGTG----GGSEEEEEECTTSCGGGTT
T ss_pred             EeeccCCCCChHHHHHHHHhhhccc--Cceeeeeeecc--hhHHHHHHHHhhccCCc----ceeeeecccccCccHHHHH
Confidence            7889999999999998766544322  22222222221  22345555555544331    234455554443321    


Q ss_pred             --HHHHHHHHHHHHHhcCCcEEEE
Q 020071          125 --AGAQQALRRTMEIYSNSTRFAL  146 (331)
Q Consensus       125 --~~~~~~Ll~~le~~~~~~~~I~  146 (331)
                        ....-++-+++.+-..++.+++
T Consensus       142 ~a~~~a~tiAEyfrd~G~~Vlll~  165 (276)
T d1fx0a3         142 LAPYTGAALAEYFMYRERHTLIIY  165 (276)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             HHHHHHHHHHHHHHHcCCceeEEe
Confidence              2334455566666555555444

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=86.53  E-value=0.17  Score=38.81  Aligned_cols=30  Identities=27%  Similarity=0.407  Sum_probs=25.1

Q ss_pred             eEEEeCC-CCccHHHHHHHHHHHhcCCCCCC
Q 020071           48 NLILAGP-PGTGKTTSILALAHELLGPNYRE   77 (331)
Q Consensus        48 ~~ll~G~-~G~GKt~la~~l~~~l~~~~~~~   77 (331)
                      .++++|- +|+|||+++-.++..+...+...
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~~G~rV   33 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRT   33 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCE
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHHCCCeE
Confidence            4789999 59999999999999997765543

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=86.37  E-value=1.9  Score=34.32  Aligned_cols=24  Identities=25%  Similarity=0.163  Sum_probs=20.9

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .++-+.|..|+|||+++.++....
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhc
Confidence            368999999999999999997654

>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=85.70  E-value=1.5  Score=35.16  Aligned_cols=41  Identities=12%  Similarity=0.159  Sum_probs=24.0

Q ss_pred             CceEEEEeCCCCCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          111 KHKVVVLDEADSMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       111 ~~~vviide~d~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      +..+||+||+|.+..... ...+.+.......+++++++...
T Consensus       192 ~~~~vI~DEaH~ikn~~s-~~~~a~~~l~~~~rllLTGTPi~  232 (298)
T d1z3ix2         192 KVGLVICDEGHRLKNSDN-QTYLALNSMNAQRRVLISGTPIQ  232 (298)
T ss_dssp             CCCEEEETTGGGCCTTCH-HHHHHHHHHCCSEEEEECSSCSG
T ss_pred             ceeeeecccccccccccc-hhhhhhhccccceeeeecchHHh
Confidence            456999999999853211 11122222345667888876543

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=85.45  E-value=1.3  Score=34.03  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=20.7

Q ss_pred             CeEEEeCCCCccHHHHHHHHHHHh
Q 020071           47 PNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        47 ~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      |-+-+.|.+++|||||+.++....
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhc
Confidence            447899999999999999997754

>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=84.71  E-value=0.83  Score=38.80  Aligned_cols=64  Identities=23%  Similarity=0.289  Sum_probs=46.5

Q ss_pred             CHHHHHHHHHHHHcCCCCeEEEeCCCCccHHHHHHHHHHHhcCCCCCCceEEeecCCCCChHhHHHHHHHH
Q 020071           30 NLDAVARLGIIARDGNMPNLILAGPPGTGKTTSILALAHELLGPNYREAVMELNASDDRGIDVVRNKIKMF  100 (331)
Q Consensus        30 ~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~  100 (331)
                      |+++++.|.+.+..|.. .+.+.|.+|++|+.++-.+.+..     +.+++.+..... ....+.+.+..+
T Consensus        13 qp~aI~~l~~~L~~g~~-~~~L~GlsgS~ka~~~A~l~~~~-----~rp~LvVt~~~~-~A~~l~~dL~~~   76 (408)
T d1c4oa1          13 QPKAIAGLVEALRDGER-FVTLLGATGTGKTVTMAKVIEAL-----GRPALVLAPNKI-LAAQLAAEFREL   76 (408)
T ss_dssp             HHHHHHHHHHHHHTTCS-EEEEEECTTSCHHHHHHHHHHHH-----TCCEEEEESSHH-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhcCCC-cEEEecCCCCHHHHHHHHHHHHh-----CCCEEEEeCCHH-HHHHHHHHHHHh
Confidence            56789999999998763 37999999999999999999988     556666654432 333444444443

>d1a5ta1 a.80.1.1 (A:208-330) delta prime subunit {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: DNA polymerase III clamp loader subunits, C-terminal domain
domain: delta prime subunit
species: Escherichia coli [TaxId: 562]

Probab=84.30  E-value=2.3  Score=29.16  Aligned_cols=51  Identities=8%  Similarity=0.163  Sum_probs=42.1

Q ss_pred             HHHHHHHHhcccChHhHHHHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHHHh
Q 020071          274 TTLFRIIKNYEMAEHLKLEFMKEAGFAHMRICD--GVGSYLQLCGLLAKLSIVRE  326 (331)
Q Consensus       274 ~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~--~~~~~l~l~~l~~~l~~~~~  326 (331)
                      ..+..++..  ++.....+.++.+..+.+++.+  |+|..+.|+..++++-+.++
T Consensus        65 ~li~~la~~--~s~~~L~~~~~~~~~~r~~L~~~~~lN~ELlL~~~Ll~we~~l~  117 (123)
T d1a5ta1          65 GLVAELANH--LSPSRLQAILGDVCHIREQLMSVTGINRELLITDLLLRIEHYLQ  117 (123)
T ss_dssp             HHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHh--cCHHHHHHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHHHHhcC
Confidence            334444555  6788899999999999999996  99999999999999976654

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=83.73  E-value=6.9  Score=29.13  Aligned_cols=21  Identities=33%  Similarity=0.200  Sum_probs=18.8

Q ss_pred             EEEeCCCCccHHHHHHHHHHH
Q 020071           49 LILAGPPGTGKTTSILALAHE   69 (331)
Q Consensus        49 ~ll~G~~G~GKt~la~~l~~~   69 (331)
                      +.+.|..+.||||++.++...
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHH
Confidence            789999999999999999654

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=83.45  E-value=0.41  Score=36.86  Aligned_cols=27  Identities=33%  Similarity=0.338  Sum_probs=21.7

Q ss_pred             EEeCCCCccHHHHHHHHHHHhcCCCCC
Q 020071           50 ILAGPPGTGKTTSILALAHELLGPNYR   76 (331)
Q Consensus        50 ll~G~~G~GKt~la~~l~~~l~~~~~~   76 (331)
                      +..|..|+|||+++..++..+...+..
T Consensus         6 v~s~KGGvGKTtia~nlA~~la~~g~~   32 (232)
T d1hyqa_           6 VASGKGGTGKTTITANLGVALAQLGHD   32 (232)
T ss_dssp             EEESSSCSCHHHHHHHHHHHHHHTTCC
T ss_pred             EECCCCCChHHHHHHHHHHHHHhCCCC
Confidence            556889999999999999998755433

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=82.68  E-value=1.1  Score=35.99  Aligned_cols=43  Identities=21%  Similarity=0.275  Sum_probs=36.4

Q ss_pred             CCceEEEEeCCC-CCCHHHHHHHHHHHHHhcCCcEEEEeeCCCC
Q 020071          110 GKHKVVVLDEAD-SMTAGAQQALRRTMEIYSNSTRFALACNVSS  152 (331)
Q Consensus       110 ~~~~vviide~d-~l~~~~~~~Ll~~le~~~~~~~~I~~~~~~~  152 (331)
                      ....+++|||++ .+++..+..|.+++++...++.+|++|.++.
T Consensus       240 ~~~~~~~iDEpe~~Lhp~~~~~l~~~l~~~~~~~QviitTHsp~  283 (308)
T d1e69a_         240 KPSPFYVLDEVDSPLDDYNAERFKRLLKENSKHTQFIVITHNKI  283 (308)
T ss_dssp             SCCSEEEEESCCSSCCHHHHHHHHHHHHHHTTTSEEEEECCCTT
T ss_pred             ccCchhhhhhccccCCHHHHHHHHHHHHHhccCCEEEEEECCHH
Confidence            456799999998 4689999999999998888899999887654

>d1bg2a_ c.37.1.9 (A:) Kinesin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.29  E-value=0.77  Score=37.62  Aligned_cols=42  Identities=12%  Similarity=0.077  Sum_probs=26.8

Q ss_pred             CCCcccc----CHHHHHHH----HHHHHcCCCCeEEEeCCCCccHHHHHH
Q 020071           23 KVCDIVG----NLDAVARL----GIIARDGNMPNLILAGPPGTGKTTSIL   64 (331)
Q Consensus        23 ~~~~~ig----~~~~~~~l----~~~l~~~~~~~~ll~G~~G~GKt~la~   64 (331)
                      .|+.+.+    |+++.+.+    ...+-.|.-..++-||+.|+|||+...
T Consensus        45 ~FD~vf~~~~~q~~vf~~~~~~lv~~~l~G~n~~i~aYGqtgSGKTyT~~   94 (323)
T d1bg2a_          45 AFDRVFQSSTSQEQVYNDCAKKIVKDVLEGYNGTIFAYGQTSSGKTHTME   94 (323)
T ss_dssp             ECSEEECTTCCHHHHHHHHTHHHHHHHHTTCCEEEEEECSTTSSHHHHHT
T ss_pred             ECCEEECCCCCHHHHHHHHHHHHHHHHHcCCCcceeeecccCCCCceecc
Confidence            4555544    55655532    333335654448999999999998763

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=80.09  E-value=5.8  Score=32.35  Aligned_cols=35  Identities=17%  Similarity=0.222  Sum_probs=25.5

Q ss_pred             HHHHHHHc-CCCCeEEEeCCCCccHHHHHHHHHHHh
Q 020071           36 RLGIIARD-GNMPNLILAGPPGTGKTTSILALAHEL   70 (331)
Q Consensus        36 ~l~~~l~~-~~~~~~ll~G~~G~GKt~la~~l~~~l   70 (331)
                      .+..+..+ ..+.++.+.|..|.|||+++..+....
T Consensus         6 ~~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~~~   41 (341)
T d1n0ua2           6 QMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRA   41 (341)
T ss_dssp             HHHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHHHH
T ss_pred             HHHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHHHC
Confidence            33444443 334469999999999999999997654