Psyllid ID: psy4734

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------
Protein Sequence
MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQFEMATSQ
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHccccccccEEEEEEEEEcEEEEEccccccHHHHHHHHHHHHHHHHHccccccccccEEEEEccccccccccccccccccccccccHHHHHHHHHHHcccccccEEEEEcccccccccccccccccccccccccccccccccccccEEEEccccccccccHHHcccEEEEccccccHHHHHHHHHHHHHHHHcHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHcccHHHHHHccHHHHHHHHHHHHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEccHHHHHHHHHcccccHccccHHHHHHcccHHHcccccccccccccccccccHHHHHHHHHHHHHHccccEEHHHHEEEHccEEEEccccccHHHHHHHHHHHHHHHHHccccccccccEEEEEEcccEEcccccccccccccHccccHHHHHHHHHHHcccccccEEEEEcccccEEEEEccccccccccEEEcccccEEEcccccEEEEEHHHHHHccccEEccccEEEEcHHHccccHHHHHHHHHccHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MQDILDIWLQVQgtwmylepifssedimrqmpeesrnfktVDQIWKTIMLFVnkdphilqATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKrlffprffflsNDELLEILSetkdplrvqpHLKKIFEASMALISGLVATLNLlffprffflsNDELLEILSetkdplrvqpHLKKIFEVRHGLMVvgesfggktTAYQTLADSLTDIAAKKSATMKEFKTgykiinpksitmgqlygefdsashewRDGILAKTFREMAvsttpdrkwimfdgpIDAVWIENMntvlddnkklclINGEIIKMSNTMNLIFEcenlefaspatvsRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQFEMATSQ
Flexible Loop (DISEMBL)
MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSetkdplrvqpHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVsttpdrkwimfDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQFEMATSQ
Low Complexity Region (SEG)
MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLELIQKGLNDYLEkkrlffprffflSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATlnllffprffflSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQFEMATSQ
Disordered region (IsUnstruct)
***ILDIWLQVQGTWMYLEPIFSSEDI*********NFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQN*****************
Disordered Region (DISOPRED)
MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS*TMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLN**********
Disordered Region (DISEMBL)
MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNE*********
Disordered Region (DISPRO)
MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQFEMATS*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQFEMATSQ
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	367	2.2.26 [Sep-21-2011]
Q8BW94	4083	Dynein heavy chain 3, axo	yes	N/A	0.643	0.057	0.505	1e-62
Q8WXX0	4024	Dynein heavy chain 7, axo	yes	N/A	0.490	0.044	0.626	2e-62
Q63170	4057	Dynein heavy chain 7, axo	no	N/A	0.476	0.043	0.627	4e-62
Q8TD57	4116	Dynein heavy chain 3, axo	no	N/A	0.640	0.057	0.496	6e-62
Q923J6	3092	Dynein heavy chain 12, ax	no	N/A	0.618	0.073	0.5	8e-58
Q3V0Q1	3086	Dynein heavy chain 12, ax	no	N/A	0.618	0.073	0.5	9e-58
Q6ZR08	3092	Dynein heavy chain 12, ax	no	N/A	0.629	0.074	0.491	2e-57
Q63164	4516	Dynein heavy chain 1, axo	no	N/A	0.495	0.040	0.513	5e-50
Q9P2D7	4330	Dynein heavy chain 1, axo	no	N/A	0.495	0.042	0.502	1e-49
Q9C0G6	4158	Dynein heavy chain 6, axo	no	N/A	0.490	0.043	0.467	6e-45

>sp|Q8BW94|DYH3_MOUSE Dynein heavy chain 3, axonemal OS=Mus musculus GN=Dnah3 PE=1 SV=2

 Score =  240 bits (613), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 128/253 (50%), Positives = 164/253 (64%), Gaps = 17/253 (6%)

Query: 123  HLKKIFEASMALISGLVATLNLLFFPRFFFLSNDE--LLEILSETKDPLRVQP------H 174
            +L K     + L  G+++ L    FP       D    LE L+     +++QP       
Sbjct: 1604 NLAKFLAQDVPLFQGIISDL----FPGVVLPKPDYEVFLEALNNNIRKMKLQPVPWFIGK 1659

Query: 175  LKKIFE---VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS 231
            + +I+E   VRHG M+VG+  GGKT+AY+ LA +L D+ A  +  M+EF   +KIINPK+
Sbjct: 1660 IIQIYEMMLVRHGYMIVGDPMGGKTSAYKVLAAALGDLHA--ANQMEEFAVEFKIINPKA 1717

Query: 232  ITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDD 291
            ITMGQLYG FD+ SHEW DG+LA  FRE A S T DRKWI+FDGP+DAVWIENMNTVLDD
Sbjct: 1718 ITMGQLYGCFDAVSHEWTDGVLANAFREQASSITDDRKWIIFDGPVDAVWIENMNTVLDD 1777

Query: 292  NKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNE 351
            NKKLCL++GEII+MS+ M+LIFE  +LE ASPATVSR GMIY E   + W     SY + 
Sbjct: 1778 NKKLCLMSGEIIQMSSKMSLIFEPADLEQASPATVSRCGMIYMEAHQLGWKPLKDSYMDT 1837

Query: 352  LKEKLNEEQFEMA 364
            L   L +E  E+ 
Sbjct: 1838 LPRCLTKEHTELV 1850

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.
Mus musculus (taxid: 10090)

>sp|Q8WXX0|DYH7_HUMAN Dynein heavy chain 7, axonemal OS=Homo sapiens GN=DNAH7 PE=1 SV=2

 Score =  239 bits (611), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 114/182 (62%), Positives = 136/182 (74%), Gaps = 2/182 (1%)

Query: 181  VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
            VRHG M+VGE FGGKT+AY+ LA +L DI  K    M+E K    ++NPKS+TMGQLYG+
Sbjct: 1601 VRHGFMIVGEPFGGKTSAYRVLAGALNDICEK--GLMEENKVQITVLNPKSVTMGQLYGQ 1658

Query: 241  FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
            FDS SHEW DG+LA +FR  A S TPDRKW++FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct: 1659 FDSVSHEWSDGVLAVSFRAFASSVTPDRKWLIFDGPVDAVWIENMNTVLDDNKKLCLMSG 1718

Query: 301  EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
            EII+MS  MNLIFE  +LE ASPATVSR GMIY E   + W    LS+ N L   ++  Q
Sbjct: 1719 EIIQMSPQMNLIFEPMDLEVASPATVSRCGMIYMEPHMLGWRPLMLSWVNLLPASVSVIQ 1778

Query: 361  FE 362
             E
Sbjct: 1779 KE 1780

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.

Homo sapiens (taxid: 9606)

>sp|Q63170|DYH7_RAT Dynein heavy chain 7, axonemal OS=Rattus norvegicus GN=Dnah7 PE=2 SV=2

 Score =  239 bits (609), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 111/177 (62%), Positives = 136/177 (76%), Gaps = 2/177 (1%)

Query: 181  VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
            VRHG M+VGE FGGKT+AY+ LA +L DI  K    M+E K    ++NPKS+TMGQLYG+
Sbjct: 1634 VRHGFMIVGEPFGGKTSAYRVLAGALGDICEK--GLMEENKVQITVLNPKSVTMGQLYGQ 1691

Query: 241  FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
            FD  SHEW DGILA +FR  A S+TPDRKW++FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct: 1692 FDLVSHEWSDGILAVSFRAFAASSTPDRKWLIFDGPVDAVWIENMNTVLDDNKKLCLMSG 1751

Query: 301  EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLN 357
            EII+MS  MNLIFE  +LE ASPATVSR GMIY E + + W    +S+ N L + ++
Sbjct: 1752 EIIQMSPQMNLIFEPMDLEVASPATVSRCGMIYMEPQMLGWRPLMVSWINTLPQSVS 1808

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.

Rattus norvegicus (taxid: 10116)

>sp|Q8TD57|DYH3_HUMAN Dynein heavy chain 3, axonemal OS=Homo sapiens GN=DNAH3 PE=2 SV=1

 Score =  238 bits (607), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 125/252 (49%), Positives = 165/252 (65%), Gaps = 17/252 (6%)

Query: 123  HLKKIFEASMALISGLVATLNLLFFPRFFFLSNDE--LLEILSETKDPLRVQP------H 174
            +L K     + L  G+++ L    FP       D    L++L++    +++QP       
Sbjct: 1637 NLAKFLAQDVPLFQGIISDL----FPGVVLPKPDYEVFLKVLNDNIKKMKLQPVPWFIGK 1692

Query: 175  LKKIFE---VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS 231
            + +I+E   VRHG M+VG+  GGKT+AY+ LA +L D+ A  +  M+EF   YKIINPK+
Sbjct: 1693 IIQIYEMMLVRHGYMIVGDPMGGKTSAYKVLAAALGDLHA--ANQMEEFAVEYKIINPKA 1750

Query: 232  ITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDD 291
            ITMGQLYG FD  SHEW DG+LA  FRE A S + DRKWI+FDGP+DA+WIENMNTVLDD
Sbjct: 1751 ITMGQLYGCFDQVSHEWMDGVLANAFREQASSLSDDRKWIIFDGPVDAIWIENMNTVLDD 1810

Query: 292  NKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNE 351
            NKKLCL++GEII+M++ M+LIFE  +LE ASPATVSR GMIY E   + W     SY + 
Sbjct: 1811 NKKLCLMSGEIIQMNSKMSLIFEPADLEQASPATVSRCGMIYMEPHQLGWKPLKDSYMDT 1870

Query: 352  LKEKLNEEQFEM 363
            L   L +E  E+
Sbjct: 1871 LPSSLTKEHKEL 1882

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Homo sapiens (taxid: 9606)

>sp|Q923J6|DYH12_RAT Dynein heavy chain 12, axonemal OS=Rattus norvegicus GN=Dnah12 PE=2 SV=2

 Score =  224 bits (571), Expect = 8e-58,   Method: Compositional matrix adjust.
 Identities = 122/244 (50%), Positives = 153/244 (62%), Gaps = 17/244 (6%)

Query: 126  KIFEASMALISGLVATLNLLFFPRFFFLSND--ELLEILSETKDPLRVQP---HLKKIFE 180
            K     + L +G+ + L    FP       D  E LE   E  +   +QP    L+KI +
Sbjct: 1462 KFLSHDIPLFNGITSDL----FPGIKLPEADYQEFLECAYEACETQNLQPVKFFLEKIIQ 1517

Query: 181  ------VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITM 234
                  VRHG M+VGE F  KT     LAD+LT +  +      E K  Y+ +NPKSITM
Sbjct: 1518 TYEMMIVRHGFMLVGEPFAAKTEVLHILADTLTLMNERNYG--DEEKVMYRTVNPKSITM 1575

Query: 235  GQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKK 294
            GQL+G+FD  SHEW DGI+A TFRE A++ +PDRKW++FDGPID +WIE+MNTVLDDNKK
Sbjct: 1576 GQLFGQFDPVSHEWTDGIVANTFREFALAESPDRKWVVFDGPIDTLWIESMNTVLDDNKK 1635

Query: 295  LCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKE 354
            LCL++GEII+MS  M+LIFE  +L  ASPATVSR GMIY E   + W     S+ N LKE
Sbjct: 1636 LCLMSGEIIQMSPQMSLIFETMDLSQASPATVSRCGMIYLEPSQLGWEPIVASWLNSLKE 1695

Query: 355  KLNE 358
             LNE
Sbjct: 1696 PLNE 1699

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Rattus norvegicus (taxid: 10116)

>sp|Q3V0Q1|DYH12_MOUSE Dynein heavy chain 12, axonemal OS=Mus musculus GN=Dnah12 PE=1 SV=2

 Score =  224 bits (571), Expect = 9e-58,   Method: Compositional matrix adjust.
 Identities = 122/244 (50%), Positives = 153/244 (62%), Gaps = 17/244 (6%)

Query: 126  KIFEASMALISGLVATLNLLFFPRFFFLSND--ELLEILSETKDPLRVQP---HLKKIFE 180
            K     + L +G+ + L    FP       D  E LE   ET     +QP    L+KI +
Sbjct: 1462 KFLSHDIPLFNGITSDL----FPGIKLPEADYKEFLECAHETCQTHNLQPVKFFLEKIIQ 1517

Query: 181  ------VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITM 234
                  VRHG M+VGE F  KT     LAD+LT +  +      E K  Y+ +NPKSITM
Sbjct: 1518 TYEMMIVRHGFMLVGEPFAAKTEVLHVLADTLTLMNERNYG--DEEKVMYRTVNPKSITM 1575

Query: 235  GQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKK 294
            GQL+G+FD  SHEW DGI+A TFRE A++ +PDRKW++FDGPID +WIE+MNTVLDDNKK
Sbjct: 1576 GQLFGQFDPVSHEWTDGIVANTFREFALAESPDRKWVVFDGPIDTLWIESMNTVLDDNKK 1635

Query: 295  LCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKE 354
            LCL++GEII+MS  M+LIFE  +L  ASPATVSR GMIY E   + W     S+ N LKE
Sbjct: 1636 LCLMSGEIIQMSPQMSLIFETMDLSQASPATVSRCGMIYLEPSQLGWEPLVASWLNSLKE 1695

Query: 355  KLNE 358
             L+E
Sbjct: 1696 PLSE 1699

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Mus musculus (taxid: 10090)

>sp|Q6ZR08|DYH12_HUMAN Dynein heavy chain 12, axonemal OS=Homo sapiens GN=DNAH12 PE=2 SV=2

 Score =  223 bits (568), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 122/248 (49%), Positives = 154/248 (62%), Gaps = 17/248 (6%)

Query: 126  KIFEASMALISGLVATLNLLFFPRFFFLSND--ELLEILSETKDPLRVQP---HLKKIFE 180
            K     + L +G+ + L    FP       D  E LE   E  +   +QP    L+KI +
Sbjct: 1464 KFLSHDIPLFNGITSDL----FPGIKLPEADYHEFLECAHEACNVHNLQPVKFFLEKIIQ 1519

Query: 181  ------VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITM 234
                  VRHG M+VGE F  KT     LAD+LT     +    +E K  Y+ +NPKSITM
Sbjct: 1520 TYEMMIVRHGFMLVGEPFAAKTKVLHVLADTLT--LMNEHGYGEEEKVIYRTVNPKSITM 1577

Query: 235  GQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKK 294
            GQL+G+FD  SHEW DGI+A TFRE A+S TPDRKW++FDGPID +WIE+MNTVLDDNKK
Sbjct: 1578 GQLFGQFDPVSHEWTDGIVANTFREFALSETPDRKWVVFDGPIDTLWIESMNTVLDDNKK 1637

Query: 295  LCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKE 354
            LCL++GEII+MS  M+LIFE  +L  ASPATVSR GMIY E   + W     S+ N LK 
Sbjct: 1638 LCLMSGEIIQMSPQMSLIFETMDLSQASPATVSRCGMIYLEPSQLGWEPLVSSWLNSLKG 1697

Query: 355  KLNEEQFE 362
             L E +++
Sbjct: 1698 PLCEPEYQ 1705

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Homo sapiens (taxid: 9606)

>sp|Q63164|DYH1_RAT Dynein heavy chain 1, axonemal OS=Rattus norvegicus GN=Dnah1 PE=2 SV=2

 Score =  198 bits (504), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 95/185 (51%), Positives = 125/185 (67%), Gaps = 3/185 (1%)

Query: 181  VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKT-GYKIINPKSITMGQLYG 239
            VRHGLM+VG +  GK+  Y+ LA ++T +  K S +   ++   Y ++NPKSITMGQLYG
Sbjct: 2046 VRHGLMLVGPTGSGKSNCYRILAAAMTSLKGKPSISGGVYEAVNYYVLNPKSITMGQLYG 2105

Query: 240  EFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLIN 299
            EFD  +HEW DGI     R  A+++  ++KW MFDGP+DAVWIENMNTVLDDNKKLCL +
Sbjct: 2106 EFDLLTHEWTDGIFPSLIRAGAIASDTNKKWYMFDGPVDAVWIENMNTVLDDNKKLCLSS 2165

Query: 300  GEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKE--KLN 357
            GEIIK++  M ++FE ++L  ASPATVSR GM+Y E   +    F   +   L    K  
Sbjct: 2166 GEIIKLTEAMTMMFEVQDLAVASPATVSRCGMVYLEPSILGLMPFVECWLKHLPSIIKPY 2225

Query: 358  EEQFE 362
            EEQF+
Sbjct: 2226 EEQFK 2230

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Rattus norvegicus (taxid: 10116)

>sp|Q9P2D7|DYH1_HUMAN Dynein heavy chain 1, axonemal OS=Homo sapiens GN=DNAH1 PE=2 SV=4

 Score =  197 bits (501), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 93/185 (50%), Positives = 127/185 (68%), Gaps = 3/185 (1%)

Query: 181  VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKT-GYKIINPKSITMGQLYG 239
            VRHGLM+VG +  GK+T Y+ LA ++T +  + S +   ++   Y ++NPKSITMGQLYG
Sbjct: 1854 VRHGLMLVGPTGSGKSTCYRVLAAAMTSLKGQPSISGGMYEAVNYYVLNPKSITMGQLYG 1913

Query: 240  EFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLIN 299
            EFD  +HEW DGI +   R  A+++  ++KW MFDGP+DA+WIENMNTVLDDNKKLCL +
Sbjct: 1914 EFDLLTHEWTDGIFSSFIRAGAITSDTNKKWYMFDGPVDAIWIENMNTVLDDNKKLCLSS 1973

Query: 300  GEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLN-- 357
            GEIIK++  M ++FE ++L  ASPATVSR GM+Y E   +    F   +  +L   L   
Sbjct: 1974 GEIIKLTEAMTMMFEVQDLAVASPATVSRCGMVYLEPSILGLMPFIECWLRKLPPLLKPY 2033

Query: 358  EEQFE 362
            EE F+
Sbjct: 2034 EEHFK 2038

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Homo sapiens (taxid: 9606)

>sp|Q9C0G6|DYH6_HUMAN Dynein heavy chain 6, axonemal OS=Homo sapiens GN=DNAH6 PE=1 SV=3

 Score =  181 bits (460), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 86/184 (46%), Positives = 127/184 (69%), Gaps = 4/184 (2%)

Query: 181  VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYK--IINPKSITMGQLY 238
            VRHG+M+VG + GGKTT Y+ LA++L ++  +K      F    K  ++NPKSITMG+LY
Sbjct: 1745 VRHGVMLVGPTGGGKTTVYRILAETLGNL--QKLGIENSFYQAVKTYVLNPKSITMGELY 1802

Query: 239  GEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLI 298
            GE ++ + EW+DG++A + R     T+ D KWI+ DGP+DA+WIENMNTVLDDNK LCL 
Sbjct: 1803 GEVNNLTLEWKDGLMALSVRAAVNDTSEDHKWIISDGPVDALWIENMNTVLDDNKMLCLA 1862

Query: 299  NGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNE 358
            N E IK++  ++++FE ++L  ASPATVSR GM++ + + + W  +  ++   + +KL E
Sbjct: 1863 NSERIKLTPQIHMLFEVQDLRVASPATVSRCGMVFVDPEELKWMPYVKTWMKGISKKLTE 1922

Query: 359  EQFE 362
            E  E
Sbjct: 1923 ETQE 1926

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.

Homo sapiens (taxid: 9606)

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	367
242009351	4089	dynein beta chain, ciliary, putative [Pe	0.653	0.058	0.564	3e-71
345486453	4002	PREDICTED: dynein heavy chain 3, axonema	0.460	0.042	0.648	9e-70
307211150	4021	Dynein heavy chain 3, axonemal [Harpegna	0.504	0.046	0.632	8e-67
328714045	3893	PREDICTED: dynein heavy chain 3, axonema	0.490	0.046	0.666	2e-66
322801678	4044	hypothetical protein SINV_08591 [Solenop	0.656	0.059	0.511	5e-66
350426762	3477	PREDICTED: dynein heavy chain 3, axonema	0.566	0.059	0.566	2e-65
357603692	4136	hypothetical protein KGM_18550 [Danaus p	0.653	0.058	0.523	2e-65
340722120	3923	PREDICTED: dynein heavy chain 3, axonema	0.561	0.052	0.570	3e-65
328716380	4071	PREDICTED: dynein heavy chain 3, axonema	0.490	0.044	0.65	4e-65
260824147	3769	hypothetical protein BRAFLDRAFT_127072 [	0.637	0.062	0.521	1e-64

>gi|242009351|ref|XP_002425451.1| dynein beta chain, ciliary, putative [Pediculus humanus corporis] gi|212509287|gb|EEB12713.1| dynein beta chain, ciliary, putative [Pediculus humanus corporis]

 Score =  275 bits (703), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 144/255 (56%), Positives = 176/255 (69%), Gaps = 15/255 (5%)

Query: 120  VQPHLKKIFEASMALISGLVATLNLLFFP--RFFFLSNDELLEILSETKDPLRVQP---H 174
            V  +L K     + L  G+++ L    FP  +      DEL+E L  +     +QP   +
Sbjct: 1615 VDVNLPKFLSEDVPLFEGIISDL----FPDVKLPKQDRDELVEELINSCKKRNLQPTEWY 1670

Query: 175  LKKIFE------VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIIN 228
            L KI +      VRHGLM+VGE  GGKT AYQ+LA++L +I   K  +MKEFK  YKIIN
Sbjct: 1671 LDKIIQIYEMIKVRHGLMIVGEPLGGKTMAYQSLAEALGEINQNKKVSMKEFKVQYKIIN 1730

Query: 229  PKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTV 288
            PK+ITMGQLYG FD+ASHEW DG+LA  FRE A S +PDRKWI+FDGPIDAVWIENMNTV
Sbjct: 1731 PKAITMGQLYGCFDAASHEWSDGVLATAFREFASSVSPDRKWIIFDGPIDAVWIENMNTV 1790

Query: 289  LDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSY 348
            LDDNKKLCL++GEII+MSN MNLIFE  +LE ASPATVSR GMIY E + + W     S+
Sbjct: 1791 LDDNKKLCLMSGEIIQMSNKMNLIFEPADLEQASPATVSRCGMIYLEPQRLGWRALHESF 1850

Query: 349  QNELKEKLNEEQFEM 363
             N+L+EKL  EQ E+
Sbjct: 1851 NNKLREKLIPEQMEI 1865

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345486453|ref|XP_001607489.2| PREDICTED: dynein heavy chain 3, axonemal [Nasonia vitripennis]

 Score =  270 bits (689), Expect = 9e-70,   Method: Compositional matrix adjust.
 Identities = 120/185 (64%), Positives = 152/185 (82%)

Query: 181  VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
            VRHGLM+VG++  GKT AYQTLAD+LTD++A + A++KE +  Y++INPK+IT+GQLYG 
Sbjct: 1583 VRHGLMIVGDTLSGKTQAYQTLADALTDLSAVRQASIKEMRVTYRVINPKAITLGQLYGN 1642

Query: 241  FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
            FD  SHEW DG+LA TFRE A ST+ +RKWI+FDGP+DA+WIENMNTVLDDNKKLCL++G
Sbjct: 1643 FDPVSHEWSDGVLANTFREYAQSTSHERKWIVFDGPVDAIWIENMNTVLDDNKKLCLMSG 1702

Query: 301  EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
            EII+MS+ MN++FE  +LE ASPATVSR GMIY E   + W  FF SY+N+LKEK+  EQ
Sbjct: 1703 EIIQMSSKMNMMFETADLEQASPATVSRCGMIYMESSQLGWVAFFESYKNKLKEKILAEQ 1762

Query: 361  FEMAT 365
             E+ T
Sbjct: 1763 LELVT 1767

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307211150|gb|EFN87368.1| Dynein heavy chain 3, axonemal [Harpegnathos saltator]

 Score =  260 bits (664), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 117/185 (63%), Positives = 146/185 (78%)

Query: 181  VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
            VRHGLM+VG +  GKT AYQ LADSL D++ ++ AT++E++T Y++INPK+I + QLYG 
Sbjct: 1610 VRHGLMLVGAALAGKTQAYQALADSLGDLSTRRKATVREYRTTYRVINPKAIPLNQLYGS 1669

Query: 241  FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
            FD  SHEW DG+LAKTFRE A ST+ DRKWI+FDGP+DA+WIE+MNTVLDDNKKLCL++G
Sbjct: 1670 FDPVSHEWSDGVLAKTFREFAQSTSLDRKWIIFDGPVDAIWIESMNTVLDDNKKLCLMSG 1729

Query: 301  EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
            EII+MS  MN++FE  +LE ASPATVSR GMIY E   + W   F SY+  LKEKL  EQ
Sbjct: 1730 EIIQMSAKMNMMFEPADLEHASPATVSRCGMIYMEPSQLGWAPIFESYKKHLKEKLLVEQ 1789

Query: 361  FEMAT 365
            FE+  
Sbjct: 1790 FELVV 1794

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328714045|ref|XP_001945551.2| PREDICTED: dynein heavy chain 3, axonemal-like [Acyrthosiphon pisum]

 Score =  259 bits (661), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 120/180 (66%), Positives = 144/180 (80%)

Query: 181  VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
            VRHGLM+VGE F GKT AYQ LA+SL+D+   + A MKEFKT  KIINPK+IT+GQLYG 
Sbjct: 1486 VRHGLMIVGEPFSGKTCAYQILAESLSDLQLDRKAIMKEFKTTCKIINPKAITIGQLYGS 1545

Query: 241  FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
            FD+ SHEW DG+LA  FRE A S + DRKWI+FDGP+DAVW+ENMNTVLDDNKKLCL++G
Sbjct: 1546 FDTVSHEWHDGVLAIVFREFANSVSMDRKWIVFDGPVDAVWVENMNTVLDDNKKLCLMSG 1605

Query: 301  EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
            EII+MSN MN++FE  NLE ASPATVSR GMIY E K + W +F+LSY+  L  K+  +Q
Sbjct: 1606 EIIQMSNKMNMVFEPANLEQASPATVSRCGMIYVEPKQLGWRSFWLSYKQNLCPKILADQ 1665

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322801678|gb|EFZ22301.1| hypothetical protein SINV_08591 [Solenopsis invicta]

 Score =  257 bits (657), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 131/256 (51%), Positives = 173/256 (67%), Gaps = 15/256 (5%)

Query: 120  VQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSND--ELLEILSETKDPLRVQP---H 174
            V  +L K     ++L +G+   L    FP       +  EL+E+L +  +   +Q    +
Sbjct: 1583 VDVNLPKFLSQDVSLFNGIYTDL----FPDVQLPQPERGELVELLKKNLEKRNLQATDWY 1638

Query: 175  LKKIFE------VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIIN 228
            L+KI +      VRHGLM+VGE+ GGKT AYQ LADSL D++  + ATM+E++T +++IN
Sbjct: 1639 LEKIVQIYEMLLVRHGLMIVGEALGGKTQAYQVLADSLGDLSGTRKATMREYRTVFRVIN 1698

Query: 229  PKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTV 288
            PK+I + QLYG FD  SHEW DG+LA TFRE A S   +RKWI+FDGP+DA+WIE+MNTV
Sbjct: 1699 PKAIPLNQLYGSFDPVSHEWSDGVLANTFREYAQSIAIERKWIVFDGPVDAIWIESMNTV 1758

Query: 289  LDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSY 348
            LDDNKKLCL++GEII+MS  MN+ FE  +LE ASPATVSR GMIY E   + W   F SY
Sbjct: 1759 LDDNKKLCLMSGEIIQMSGKMNMFFEPADLEHASPATVSRCGMIYMEPSQLGWQAIFESY 1818

Query: 349  QNELKEKLNEEQFEMA 364
            +  LKEKL  EQ+E+ 
Sbjct: 1819 KKHLKEKLLFEQYELV 1834

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350426762|ref|XP_003494535.1| PREDICTED: dynein heavy chain 3, axonemal-like, partial [Bombus impatiens]

 Score =  255 bits (651), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 123/217 (56%), Positives = 161/217 (74%), Gaps = 9/217 (4%)

Query: 156  DELLEILSET--KDPLRVQP-HLKKIFE------VRHGLMVVGESFGGKTTAYQTLADSL 206
            +EL+E++     K  L+  P +++KI +      VRHGLM+VG +  GKT AYQ LA++L
Sbjct: 1447 EELIELVRNVLKKRNLQATPWYMEKIIQIYEMLLVRHGLMIVGRTLSGKTQAYQVLAEAL 1506

Query: 207  TDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTP 266
             ++A K+ ATM+EF T YKIINPK+IT+ QLYG FD  SHEW DG+LA  FRE A + +P
Sbjct: 1507 GELAGKRRATMREFSTIYKIINPKAITLDQLYGSFDPVSHEWSDGVLANIFREFAQAISP 1566

Query: 267  DRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATV 326
            +RKWI+FDGP+DA+WIE+MNTVLDDNKKLCL++GEII+MS+ MN++FE  +LE ASPATV
Sbjct: 1567 ERKWIVFDGPVDAIWIESMNTVLDDNKKLCLMSGEIIQMSHKMNMMFEPADLEHASPATV 1626

Query: 327  SRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQFEM 363
            SR GMIY E   + W   F SY+  LK KL  EQ+E+
Sbjct: 1627 SRCGMIYMEPSQLGWNALFDSYKTYLKNKLLIEQYEL 1663

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357603692|gb|EHJ63881.1| hypothetical protein KGM_18550 [Danaus plexippus]

 Score =  255 bits (651), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 134/256 (52%), Positives = 171/256 (66%), Gaps = 16/256 (6%)

Query: 120  VQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSND--ELLEILSETKDPLRVQP---H 174
            V  ++ K     + L +G+ + L    FP    L  D  ELL  +++  +   +QP   +
Sbjct: 1667 VDVNMPKFLSQDVPLFAGIYSDL----FPGVDILQPDRSELLRCINKELEKRNLQPTDWY 1722

Query: 175  LKKIFE------VRHGLMVVGESFGGKTTAYQTLADSLTDIA-AKKSATMKEFKTGYKII 227
            L+KI +      VRHG M+VG   GGKT AYQ+LA+SL  +   +     KEF   Y+II
Sbjct: 1723 LEKIIQIYEMMLVRHGFMIVGPPMGGKTQAYQSLAESLRALQLMRPPPKHKEFGAIYRII 1782

Query: 228  NPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNT 287
            NPK+ITMGQLYG FD ASHEW DG+LA  FRE A+S + DRKWI+FDGP+DAVWIENMNT
Sbjct: 1783 NPKAITMGQLYGCFDPASHEWSDGVLAIAFREYAMSASRDRKWILFDGPVDAVWIENMNT 1842

Query: 288  VLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLS 347
            VLDDNKKLCL++GEII+M+N MNLIFE  +LEFASPATVSR GMIY E + + W  F  S
Sbjct: 1843 VLDDNKKLCLMSGEIIQMTNKMNLIFEPADLEFASPATVSRCGMIYMEPEQLGWRAFLTS 1902

Query: 348  YQNELKEKLNEEQFEM 363
            Y   L +KL  EQ+++
Sbjct: 1903 YNTHLCKKLIPEQYDL 1918

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340722120|ref|XP_003399457.1| PREDICTED: dynein heavy chain 3, axonemal-like [Bombus terrestris]

 Score =  254 bits (650), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 122/214 (57%), Positives = 161/214 (75%), Gaps = 8/214 (3%)

Query: 157  ELLEILSETKDPLRVQP-HLKKIFE------VRHGLMVVGESFGGKTTAYQTLADSLTDI 209
            EL+ I+ + ++ L+  P +++KI +      VRHGLM+VG +  GKT AYQ LA++L ++
Sbjct: 1490 ELIRIVLKKRN-LQATPWYMEKIIQIYEMLLVRHGLMIVGRTLSGKTQAYQVLAEALGEL 1548

Query: 210  AAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRK 269
            A K+ ATM+EF T YKIINPK+IT+ QLYG FD  SHEW DG+LA  FRE A + +P+RK
Sbjct: 1549 AGKRRATMREFSTIYKIINPKAITLDQLYGSFDPVSHEWSDGVLANIFREFAQAISPERK 1608

Query: 270  WIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRV 329
            WI+FDGP+DA+WIE+MNTVLDDNKKLCL++GEII+MS+ MN++FE  +LE ASPATVSR 
Sbjct: 1609 WIVFDGPVDAIWIESMNTVLDDNKKLCLMSGEIIQMSHKMNMMFEPADLEHASPATVSRC 1668

Query: 330  GMIYFELKCISWTTFFLSYQNELKEKLNEEQFEM 363
            GMIY E   + W   F SY+  LK KL  EQ+E+
Sbjct: 1669 GMIYMEPSQLGWNALFDSYKTYLKNKLLIEQYEL 1702

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328716380|ref|XP_001944438.2| PREDICTED: dynein heavy chain 3, axonemal-like [Acyrthosiphon pisum]

 Score =  254 bits (649), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 117/180 (65%), Positives = 142/180 (78%)

Query: 181  VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
            VRHGLM+VGE F GKT AYQ LA+SL D+   + + MKEF+T  KIINPK+IT+GQLYG 
Sbjct: 1664 VRHGLMIVGEPFSGKTCAYQVLAESLGDLQLDRKSLMKEFRTTCKIINPKAITLGQLYGS 1723

Query: 241  FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
            FD+ SHEW DG+LA  FRE A S + DRKWI+FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct: 1724 FDAVSHEWYDGVLAIVFREFANSVSRDRKWIVFDGPVDAVWIENMNTVLDDNKKLCLMSG 1783

Query: 301  EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
            EII+M+N MN++FE  NLE ASPATVSR GMIY E K + W +F+ SY+  L  K+  +Q
Sbjct: 1784 EIIQMNNKMNMVFEPANLEQASPATVSRCGMIYVEPKQLGWRSFWFSYKQTLSSKIFPDQ 1843

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|260824147|ref|XP_002607029.1| hypothetical protein BRAFLDRAFT_127072 [Branchiostoma floridae] gi|229292375|gb|EEN63039.1| hypothetical protein BRAFLDRAFT_127072 [Branchiostoma floridae]

 Score =  253 bits (645), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 132/253 (52%), Positives = 170/253 (67%), Gaps = 19/253 (7%)

Query: 123  HLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSETKDPLR---VQPH----- 174
            +L K     + L  G+++ L    FP    L   +  + L   KD ++   +QPH     
Sbjct: 1572 NLAKFLAQDIPLFRGIISDL----FPGVV-LPEPDYAQFLDAVKDNMKKRNLQPHPWHIE 1626

Query: 175  -LKKIFE---VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPK 230
             + +++E   VRHG M+VG+  GGKT AY+ LA +L+D+ A  +  M EF   YKIINPK
Sbjct: 1627 KITQVYEMMLVRHGFMIVGDPMGGKTMAYKVLAGALSDLHA--AGLMNEFNVLYKIINPK 1684

Query: 231  SITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLD 290
            +ITMGQLYG FD  SHEW DG+LA +FRE A ST  DR+WI+FDGP+DAVWIENMNTVLD
Sbjct: 1685 AITMGQLYGCFDPVSHEWSDGVLAVSFREQASSTLEDRQWILFDGPVDAVWIENMNTVLD 1744

Query: 291  DNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQN 350
            DNKKLCL++GEII+MS+ M+LIFE E+LE ASPATVSR GMIYFE   + W  F  SY N
Sbjct: 1745 DNKKLCLMSGEIIQMSSQMSLIFEPEDLEVASPATVSRCGMIYFEPHQLGWRPFKESYFN 1804

Query: 351  ELKEKLNEEQFEM 363
             L E +N+E  ++
Sbjct: 1805 NLPETMNKEHRDL 1817

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

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	367
UNIPROTKB|J9NS43	3346	DNAH7 "Uncharacterized protein	0.495	0.054	0.630	1e-93
UNIPROTKB|J9P9Z9	4023	DNAH7 "Uncharacterized protein	0.490	0.044	0.631	3.3e-93
UNIPROTKB|F1PUS6	4026	DNAH7 "Uncharacterized protein	0.490	0.044	0.631	3.4e-93
UNIPROTKB|Q8WXX0	4024	DNAH7 "Dynein heavy chain 7, a	0.490	0.044	0.626	1.1e-92
UNIPROTKB|F1N5R7	4024	DNAH7 "Uncharacterized protein	0.531	0.048	0.567	1.8e-92
FB|FBgn0035581	4385	CG17150 [Drosophila melanogast	0.512	0.042	0.574	2.3e-92
RGD|621798	4057	Dnah7 "dynein, axonemal, heavy	0.490	0.044	0.620	3.9e-92
UNIPROTKB|F1LS28	4057	Dnah7 "Dynein heavy chain 7, a	0.490	0.044	0.620	3.9e-92
UNIPROTKB|Q63170	4057	Dnah7 "Dynein heavy chain 7, a	0.490	0.044	0.620	3.9e-92
UNIPROTKB|F1NNT1	3863	DNAH3 "Uncharacterized protein	0.501	0.047	0.602	1.5e-91

UNIPROTKB|J9NS43 DNAH7 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 591 (213.1 bits), Expect = 1.0e-93, Sum P(2) = 1.0e-93
 Identities = 116/184 (63%), Positives = 138/184 (75%)

Query:   181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS--ATMKEFKTGYKIINPKSITMGQLY 238
             VRHG M+VGE FGGKT+AY+ LA +L+D+  K S    M+E K    ++NPKS+TMGQLY
Sbjct:   863 VRHGFMIVGEPFGGKTSAYRVLAGALSDMCEKPSNEGLMEENKVQITVLNPKSVTMGQLY 922

Query:   239 GEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLI 298
             G+FD  SHEW DGILA +FR  A STTPDRKW++FDGP+DAVWIENMNTVLDDNKKLCL+
Sbjct:   923 GQFDVVSHEWSDGILAVSFRAFASSTTPDRKWLIFDGPVDAVWIENMNTVLDDNKKLCLM 982

Query:   299 NGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNE 358
             +GEII+MS  MNLIFE  +LE ASPATVSR GMIY E   + W    LS+ N L   +N 
Sbjct:   983 SGEIIQMSPQMNLIFEPMDLEVASPATVSRCGMIYMEPHMLGWRPLMLSWINLLPAAINL 1042

Query:   359 EQFE 362
              Q E
Sbjct:  1043 IQKE 1046

GO:0005524 "ATP binding" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0001539 "ciliary or flagellar motility" evidence=IEA

UNIPROTKB|J9P9Z9 DNAH7 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 588 (212.0 bits), Expect = 3.3e-93, Sum P(2) = 3.3e-93
 Identities = 115/182 (63%), Positives = 137/182 (75%)

Query:   181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
             VRHG M+VGE FGGKT+AY+ LA +L+D+  K    M+E K    ++NPKS+TMGQLYG+
Sbjct:  1600 VRHGFMIVGEPFGGKTSAYRVLAGALSDMCEK--GLMEENKVQITVLNPKSVTMGQLYGQ 1657

Query:   241 FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
             FD  SHEW DGILA +FR  A STTPDRKW++FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct:  1658 FDVVSHEWSDGILAVSFRAFASSTTPDRKWLIFDGPVDAVWIENMNTVLDDNKKLCLMSG 1717

Query:   301 EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
             EII+MS  MNLIFE  +LE ASPATVSR GMIY E   + W    LS+ N L   +N  Q
Sbjct:  1718 EIIQMSPQMNLIFEPMDLEVASPATVSRCGMIYMEPHMLGWRPLMLSWINLLPAAINLIQ 1777

Query:   361 FE 362
              E
Sbjct:  1778 KE 1779

GO:0005524 "ATP binding" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0005509 "calcium ion binding" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0001539 "ciliary or flagellar motility" evidence=IEA

UNIPROTKB|F1PUS6 DNAH7 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 588 (212.0 bits), Expect = 3.4e-93, Sum P(2) = 3.4e-93
 Identities = 115/182 (63%), Positives = 137/182 (75%)

Query:   181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
             VRHG M+VGE FGGKT+AY+ LA +L+D+  K    M+E K    ++NPKS+TMGQLYG+
Sbjct:  1603 VRHGFMIVGEPFGGKTSAYRVLAGALSDMCEK--GLMEENKVQITVLNPKSVTMGQLYGQ 1660

Query:   241 FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
             FD  SHEW DGILA +FR  A STTPDRKW++FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct:  1661 FDVVSHEWSDGILAVSFRAFASSTTPDRKWLIFDGPVDAVWIENMNTVLDDNKKLCLMSG 1720

Query:   301 EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
             EII+MS  MNLIFE  +LE ASPATVSR GMIY E   + W    LS+ N L   +N  Q
Sbjct:  1721 EIIQMSPQMNLIFEPMDLEVASPATVSRCGMIYMEPHMLGWRPLMLSWINLLPAAINLIQ 1780

Query:   361 FE 362
              E
Sbjct:  1781 KE 1782

GO:0005524 "ATP binding" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0005509 "calcium ion binding" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0001539 "ciliary or flagellar motility" evidence=IEA

UNIPROTKB|Q8WXX0 DNAH7 "Dynein heavy chain 7, axonemal" [Homo sapiens (taxid:9606)]

 Score = 587 (211.7 bits), Expect = 1.1e-92, Sum P(2) = 1.1e-92
 Identities = 114/182 (62%), Positives = 136/182 (74%)

Query:   181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
             VRHG M+VGE FGGKT+AY+ LA +L DI  K    M+E K    ++NPKS+TMGQLYG+
Sbjct:  1601 VRHGFMIVGEPFGGKTSAYRVLAGALNDICEK--GLMEENKVQITVLNPKSVTMGQLYGQ 1658

Query:   241 FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
             FDS SHEW DG+LA +FR  A S TPDRKW++FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct:  1659 FDSVSHEWSDGVLAVSFRAFASSVTPDRKWLIFDGPVDAVWIENMNTVLDDNKKLCLMSG 1718

Query:   301 EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
             EII+MS  MNLIFE  +LE ASPATVSR GMIY E   + W    LS+ N L   ++  Q
Sbjct:  1719 EIIQMSPQMNLIFEPMDLEVASPATVSRCGMIYMEPHMLGWRPLMLSWVNLLPASVSVIQ 1778

Query:   361 FE 362
              E
Sbjct:  1779 KE 1780

GO:0005509 "calcium ion binding" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005874 "microtubule" evidence=IEA

GO:0035085 "cilium axoneme" evidence=IEA

GO:0001539 "ciliary or flagellar motility" evidence=NAS

GO:0003777 "microtubule motor activity" evidence=NAS

GO:0005858 "axonemal dynein complex" evidence=NAS

GO:0005929 "cilium" evidence=IDA

UNIPROTKB|F1N5R7 DNAH7 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 581 (209.6 bits), Expect = 1.8e-92, Sum P(2) = 1.8e-92
 Identities = 117/206 (56%), Positives = 147/206 (71%)

Query:   156 DELLEILSETKDPLRVQ------PHLKKIFE---VRHGLMVVGESFGGKTTAYQTLADSL 206
             ++LL  + +  D + +Q        + +I+E   VRHG M+VGE FGGKT+AY+ LA +L
Sbjct:  1567 NDLLGAIKDNCDSMNLQMTRFFSEKILQIYEMMIVRHGFMIVGEPFGGKTSAYRVLAGAL 1626

Query:   207 TDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTP 266
              D+  K    M+E K    ++NPKS+TMGQLYG+FD  SHEW DGILA +FR  A S+TP
Sbjct:  1627 NDLCEK--GLMEENKVQITVLNPKSVTMGQLYGQFDLVSHEWSDGILAVSFRAFAASSTP 1684

Query:   267 DRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATV 326
             DRKW++FDGP+DAVWIENMNTVLDDNKKLCL++GEII+MS  MNLIFE  +LE ASPATV
Sbjct:  1685 DRKWLIFDGPVDAVWIENMNTVLDDNKKLCLMSGEIIQMSPQMNLIFEPMDLEVASPATV 1744

Query:   327 SRVGMIYFELKCISWTTFFLSYQNEL 352
             SR GMIY E   + W    LS+ N L
Sbjct:  1745 SRCGMIYMEPHMLGWRPLMLSWINLL 1770

GO:0005929 "cilium" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0005509 "calcium ion binding" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0001539 "ciliary or flagellar motility" evidence=IEA

FB|FBgn0035581 CG17150 [Drosophila melanogaster (taxid:7227)]

 Score = 579 (208.9 bits), Expect = 2.3e-92, Sum P(2) = 2.3e-92
 Identities = 112/195 (57%), Positives = 142/195 (72%)

Query:   169 LRVQP-HLKKIFE------VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFK 221
             L+  P +L+KI +      VRHGLM+VG S GGKTTAYQ LA +L +++  + AT+KEF 
Sbjct:  1912 LQATPWYLEKILQIYEMLLVRHGLMIVGGSMGGKTTAYQVLAQTLRNVSTDEEATLKEFP 1971

Query:   222 TGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVW 281
               ++IINPK+ITMGQLYG FD  SHEW DG+LAKTFRE       +R W+MFDGP+DAVW
Sbjct:  1972 VTFRIINPKAITMGQLYGRFDPVSHEWYDGVLAKTFREQVQGPKGERAWVMFDGPVDAVW 2031

Query:   282 IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISW 341
             IEN+NTVLDDNKKLCL++GEI++M+  MN++FE  +LE ASPATVSR GMIY E   + W
Sbjct:  2032 IENLNTVLDDNKKLCLMSGEIMQMTKLMNMMFEPADLEQASPATVSRCGMIYMEPSQLGW 2091

Query:   342 TTFFLSYQNELKEKL 356
                  S+ N L  K+
Sbjct:  2092 RALHKSFINVLVNKV 2106

GO:0003774 "motor activity" evidence=ISS

GO:0005875 "microtubule associated complex" evidence=ISS

GO:0030286 "dynein complex" evidence=IEA;ISS

GO:0042623 "ATPase activity, coupled" evidence=ISS

GO:0007018 "microtubule-based movement" evidence=IEA;ISS

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

RGD|621798 Dnah7 "dynein, axonemal, heavy chain 7" [Rattus norvegicus (taxid:10116)]

 Score = 585 (211.0 bits), Expect = 3.9e-92, Sum P(2) = 3.9e-92
 Identities = 113/182 (62%), Positives = 138/182 (75%)

Query:   181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
             VRHG M+VGE FGGKT+AY+ LA +L DI  K    M+E K    ++NPKS+TMGQLYG+
Sbjct:  1634 VRHGFMIVGEPFGGKTSAYRVLAGALGDICEK--GLMEENKVQITVLNPKSVTMGQLYGQ 1691

Query:   241 FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
             FD  SHEW DGILA +FR  A S+TPDRKW++FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct:  1692 FDLVSHEWSDGILAVSFRAFAASSTPDRKWLIFDGPVDAVWIENMNTVLDDNKKLCLMSG 1751

Query:   301 EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
             EII+MS  MNLIFE  +LE ASPATVSR GMIY E + + W    +S+ N L + ++  Q
Sbjct:  1752 EIIQMSPQMNLIFEPMDLEVASPATVSRCGMIYMEPQMLGWRPLMVSWINTLPQSVSIIQ 1811

Query:   361 FE 362
              E
Sbjct:  1812 KE 1813

GO:0001539 "ciliary or flagellar motility" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0005509 "calcium ion binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0005874 "microtubule" evidence=IEA

GO:0005929 "cilium" evidence=ISO

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0035085 "cilium axoneme" evidence=IEA

UNIPROTKB|F1LS28 Dnah7 "Dynein heavy chain 7, axonemal" [Rattus norvegicus (taxid:10116)]

 Score = 585 (211.0 bits), Expect = 3.9e-92, Sum P(2) = 3.9e-92
 Identities = 113/182 (62%), Positives = 138/182 (75%)

Query:   181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
             VRHG M+VGE FGGKT+AY+ LA +L DI  K    M+E K    ++NPKS+TMGQLYG+
Sbjct:  1634 VRHGFMIVGEPFGGKTSAYRVLAGALGDICEK--GLMEENKVQITVLNPKSVTMGQLYGQ 1691

Query:   241 FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
             FD  SHEW DGILA +FR  A S+TPDRKW++FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct:  1692 FDLVSHEWSDGILAVSFRAFAASSTPDRKWLIFDGPVDAVWIENMNTVLDDNKKLCLMSG 1751

Query:   301 EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
             EII+MS  MNLIFE  +LE ASPATVSR GMIY E + + W    +S+ N L + ++  Q
Sbjct:  1752 EIIQMSPQMNLIFEPMDLEVASPATVSRCGMIYMEPQMLGWRPLMVSWINTLPQSVSIIQ 1811

Query:   361 FE 362
              E
Sbjct:  1812 KE 1813

GO:0001539 "ciliary or flagellar motility" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0005509 "calcium ion binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

UNIPROTKB|Q63170 Dnah7 "Dynein heavy chain 7, axonemal" [Rattus norvegicus (taxid:10116)]

 Score = 585 (211.0 bits), Expect = 3.9e-92, Sum P(2) = 3.9e-92
 Identities = 113/182 (62%), Positives = 138/182 (75%)

Query:   181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
             VRHG M+VGE FGGKT+AY+ LA +L DI  K    M+E K    ++NPKS+TMGQLYG+
Sbjct:  1634 VRHGFMIVGEPFGGKTSAYRVLAGALGDICEK--GLMEENKVQITVLNPKSVTMGQLYGQ 1691

Query:   241 FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
             FD  SHEW DGILA +FR  A S+TPDRKW++FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct:  1692 FDLVSHEWSDGILAVSFRAFAASSTPDRKWLIFDGPVDAVWIENMNTVLDDNKKLCLMSG 1751

Query:   301 EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
             EII+MS  MNLIFE  +LE ASPATVSR GMIY E + + W    +S+ N L + ++  Q
Sbjct:  1752 EIIQMSPQMNLIFEPMDLEVASPATVSRCGMIYMEPQMLGWRPLMVSWINTLPQSVSIIQ 1811

Query:   361 FE 362
              E
Sbjct:  1812 KE 1813

GO:0001539 "ciliary or flagellar motility" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

UNIPROTKB|F1NNT1 DNAH3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 583 (210.3 bits), Expect = 1.5e-91, Sum P(2) = 1.5e-91
 Identities = 112/186 (60%), Positives = 137/186 (73%)

Query:   181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE 240
             VRHG M+VG+  GGKT AYQ LA +L D+ A KS  M EF   +++INPK+ITMGQLYG 
Sbjct:  1447 VRHGFMIVGDPLGGKTCAYQVLAGALGDLCAAKS--MDEFAVEFQVINPKAITMGQLYGS 1504

Query:   241 FDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLING 300
             FD  SHEW DG+LA  FR  A STT DRKWI+FDGP+DAVWIENMNTVLDDNKKLCL++G
Sbjct:  1505 FDPVSHEWTDGVLAHAFRAQASSTTDDRKWIVFDGPVDAVWIENMNTVLDDNKKLCLMSG 1564

Query:   301 EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQ 360
             EII+M++ M+LIFE  +LE ASPATVSR GMIY + + + W     SY + L   L +E 
Sbjct:  1565 EIIQMNSKMSLIFEAADLEEASPATVSRCGMIYMDPQQLGWKPLKDSYMHTLPPNLQDEH 1624

Query:   361 FEMATS 366
              E+  +
Sbjct:  1625 RELVNN 1630

GO:0001539 "ciliary or flagellar motility" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0005858 "axonemal dynein complex" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8WXX0	DYH7_HUMAN	No assigned EC number	0.6263	0.4904	0.0447	yes	N/A
Q8BW94	DYH3_MOUSE	No assigned EC number	0.5059	0.6430	0.0578	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	367
pfam08393	408	pfam08393, DHC_N2, Dynein heavy chain, N-terminal	3e-65
COG5245	3164	COG5245, DYN1, Dynein, heavy chain [Cytoskeleton]	8e-08
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	6e-04

>gnl|CDD|219818 pfam08393, DHC_N2, Dynein heavy chain, N-terminal region 2

 Score =  212 bits (541), Expect = 3e-65
 Identities = 75/129 (58%), Positives = 99/129 (76%)

Query: 1   MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQ 60
           +Q++L++WL+VQ  W+YLEPIFSS DI +Q+PEES+ F  VD+ WK +M   NKDP++L+
Sbjct: 216 IQEVLELWLKVQRKWVYLEPIFSSSDIKKQLPEESKRFSNVDKEWKKLMKKANKDPNVLE 275

Query: 61  ATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRV 120
              +  +L+   K N  LE IQK LN+YLE KR  FPRF+FLSND+LLEILS++KDP  V
Sbjct: 276 VCNIPGLLEKLEKLNEQLEKIQKSLNEYLESKRSAFPRFYFLSNDDLLEILSQSKDPTAV 335

Query: 121 QPHLKKIFE 129
           QPHLKK+FE
Sbjct: 336 QPHLKKLFE 344

Dyneins are described as motor proteins of eukaryotic cells, as they can convert energy derived from the hydrolysis of ATP to force and movement along cytoskeletal polymers, such as microtubules. This region is found C-terminal to the dynein heavy chain N-terminal region 1 (pfam08385) in many members of this family. No functions seem to have been attributed specifically to this region. Length = 408

>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton]

 Score = 54.2 bits (130), Expect = 8e-08
 Identities = 30/108 (27%), Positives = 62/108 (57%), Gaps = 6/108 (5%)

Query: 231  SITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRK-WIMFDG-PIDAVWIENMNTV 288
               M +++G  D  + ++RD +  +  R    +    R+   +F+  P+++ ++E+ N +
Sbjct: 1861 PRNMREIFGHRDELTGDFRDSLKVQDLR---RNIHGGRECLFIFESIPVESSFLEDFNPL 1917

Query: 289  LDDNKKLCLING-EIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE 335
            LD+N+ LCL +G E I++   +  +FE  +LE  + AT++RV ++Y E
Sbjct: 1918 LDNNRFLCLFSGNERIRIPENLRFVFESTSLEKDTEATLTRVFLVYME 1965

Length = 3164

>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily)

 Score = 39.2 bits (92), Expect = 6e-04
 Identities = 33/155 (21%), Positives = 55/155 (35%), Gaps = 31/155 (20%)

Query: 184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDS 243
           G+++VG    GK+     LA+ L    + +            +   +  T   L G  + 
Sbjct: 1   GVLLVGPPGTGKS----ELAERLAAALSNRPVFY--------VQLTRDTTEEDLKGRRNI 48

Query: 244 A--SHEWRDGILAKTFREMAVSTTPDRKWIMFDGPID---AVWIENMNTVLDDNKKLCLI 298
                 W DG L +  RE           I     I+      + ++ ++LD+ + L   
Sbjct: 49  DPGGASWVDGPLVRAARE---------GEIAVLDEINRANPDVLNSLLSLLDERRLLLPE 99

Query: 299 NGEIIKMSNT-MNLIFECENL----EFASPATVSR 328
            GE++K +     LI     L       SPA  SR
Sbjct: 100 GGELVKAAPDGFRLIATMNPLDRGLNELSPALRSR 134

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 135

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	367
PF08393	408	DHC_N2: Dynein heavy chain, N-terminal region 2; I	100.0
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.27
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	99.09
PHA02244	383	ATPase-like protein	98.92
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	98.82
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	98.78
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.77
PF08393	408	DHC_N2: Dynein heavy chain, N-terminal region 2; I	98.71
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	98.65
KOG1808|consensus	1856		98.39
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.37
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.14
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.62
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.55
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.5
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.48
PF00004	132	AAA: ATPase family associated with various cellula	97.48
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.41
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.38
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.37
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.29
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.27
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.26
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.23
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.22
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.2
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.19
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.18
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.13
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.11
PRK12402	337	replication factor C small subunit 2; Reviewed	97.06
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.04
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.02
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.01
PLN03025	319	replication factor C subunit; Provisional	96.99
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.96
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	96.96
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	96.95
PHA02544	316	44 clamp loader, small subunit; Provisional	96.95
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.94
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	96.92
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.91
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.9
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	96.88
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.86
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	96.85
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.8
COG0714	329	MoxR-like ATPases [General function prediction onl	96.8
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.79
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.78
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.77
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	96.74
PRK06871	325	DNA polymerase III subunit delta'; Validated	96.73
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	96.7
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.69
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.67
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	96.67
PRK05564	313	DNA polymerase III subunit delta'; Validated	96.67
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.66
PRK09112	351	DNA polymerase III subunit delta'; Validated	96.57
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	96.55
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.53
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.52
COG2256	436	MGS1 ATPase related to the helicase subunit of the	96.52
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	96.5
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	96.47
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	96.47
CHL00181	287	cbbX CbbX; Provisional	96.46
PRK07471	365	DNA polymerase III subunit delta'; Validated	96.43
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.37
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.3
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.29
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	96.26
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.24
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.19
PRK04195	482	replication factor C large subunit; Provisional	96.12
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	96.11
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	96.11
PRK08058	329	DNA polymerase III subunit delta'; Validated	96.09
PRK10865	857	protein disaggregation chaperone; Provisional	96.06
KOG0989|consensus	346		96.05
PRK06893	229	DNA replication initiation factor; Validated	96.05
PRK07261	171	topology modulation protein; Provisional	96.02
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.99
PRK05917	290	DNA polymerase III subunit delta'; Validated	95.96
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	95.93
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	95.9
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	95.88
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.88
PRK05818	261	DNA polymerase III subunit delta'; Validated	95.87
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	95.85
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	95.84
PRK13342	413	recombination factor protein RarA; Reviewed	95.81
PRK08084	235	DNA replication initiation factor; Provisional	95.75
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.63
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	95.6
PTZ00088	229	adenylate kinase 1; Provisional	95.56
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	95.56
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.52
PRK14088	440	dnaA chromosomal replication initiation protein; P	95.46
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.4
PRK06217	183	hypothetical protein; Validated	95.39
PRK05642	234	DNA replication initiation factor; Validated	95.36
KOG0741|consensus	744		95.36
PRK07399	314	DNA polymerase III subunit delta'; Validated	95.33
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	95.25
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.24
PRK00149	450	dnaA chromosomal replication initiation protein; R	95.23
KOG0730|consensus	693		95.21
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	95.1
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	95.09
KOG0733|consensus	802		95.05
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.05
CHL00095	821	clpC Clp protease ATP binding subunit	95.01
smart00382	148	AAA ATPases associated with a variety of cellular	94.97
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	94.97
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	94.93
PRK08118	167	topology modulation protein; Reviewed	94.9
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	94.88
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	94.78
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	94.76
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	94.74
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	94.7
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	94.66
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	94.62
KOG0733|consensus	802		94.57
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	94.52
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	94.52
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	94.51
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	94.42
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	94.34
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.3
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	94.28
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.27
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	94.27
PHA02774	613	E1; Provisional	94.26
PLN02842	505	nucleotide kinase	94.19
PF13173	128	AAA_14: AAA domain	94.15
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.15
PRK15424	538	propionate catabolism operon regulatory protein Pr	94.03
PRK13833	323	conjugal transfer protein TrbB; Provisional	94.0
PRK03839	180	putative kinase; Provisional	94.0
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.98
PRK15455	644	PrkA family serine protein kinase; Provisional	93.96
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	93.94
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	93.9
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	93.86
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	93.85
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	93.82
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	93.81
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	93.76
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	93.74
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	93.74
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	93.74
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	93.67
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	93.67
PRK14530	215	adenylate kinase; Provisional	93.63
PRK13851	344	type IV secretion system protein VirB11; Provision	93.62
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	93.62
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	93.58
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	93.53
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	93.5
PF13555	62	AAA_29: P-loop containing region of AAA domain	93.48
COG2204	464	AtoC Response regulator containing CheY-like recei	93.45
PRK06851	367	hypothetical protein; Provisional	93.42
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	93.4
cd03115	173	SRP The signal recognition particle (SRP) mediates	93.38
PRK00131	175	aroK shikimate kinase; Reviewed	93.37
PRK06762	166	hypothetical protein; Provisional	93.37
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	93.3
PRK07276	290	DNA polymerase III subunit delta'; Validated	93.3
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	93.27
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	93.26
PRK13949	169	shikimate kinase; Provisional	93.26
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	93.21
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	93.21
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	93.18
PRK13947	171	shikimate kinase; Provisional	93.14
KOG2028|consensus	554		93.11
PRK08233	182	hypothetical protein; Provisional	93.05
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	93.04
PRK14531	183	adenylate kinase; Provisional	93.01
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	93.01
PRK14532	188	adenylate kinase; Provisional	93.01
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	92.97
KOG0991|consensus	333		92.96
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	92.94
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	92.91
smart00350	509	MCM minichromosome maintenance proteins.	92.91
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	92.9
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	92.88
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	92.86
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	92.84
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	92.84
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	92.81
KOG0745|consensus	564		92.76
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	92.73
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	92.73
PRK02496	184	adk adenylate kinase; Provisional	92.65
COG1084	346	Predicted GTPase [General function prediction only	92.62
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	92.59
PRK05480	209	uridine/cytidine kinase; Provisional	92.59
PRK07132	299	DNA polymerase III subunit delta'; Validated	92.56
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	92.46
PRK05541	176	adenylylsulfate kinase; Provisional	92.45
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	92.41
COG1221	403	PspF Transcriptional regulators containing an AAA-	92.39
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	92.35
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	92.25
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	92.22
PRK08181	269	transposase; Validated	92.19
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	92.14
PRK06547	172	hypothetical protein; Provisional	92.12
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	92.12
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	92.11
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	92.1
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	92.1
TIGR00235	207	udk uridine kinase. Model contains a number of lon	92.08
PF01580	205	FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR00	92.07
PRK13764	602	ATPase; Provisional	91.87
PRK00625	173	shikimate kinase; Provisional	91.86
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	91.85
PF05729	166	NACHT: NACHT domain	91.83
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	91.8
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	91.78
PRK14528	186	adenylate kinase; Provisional	91.77
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	91.76
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	91.74
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	91.74
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	91.68
PRK06696	223	uridine kinase; Validated	91.61
PF13245	76	AAA_19: Part of AAA domain	91.54
PRK00300	205	gmk guanylate kinase; Provisional	91.52
PTZ00112	1164	origin recognition complex 1 protein; Provisional	91.52
PRK13808	333	adenylate kinase; Provisional	91.52
PRK14527	191	adenylate kinase; Provisional	91.47
PRK14738	206	gmk guanylate kinase; Provisional	91.47
PTZ00301	210	uridine kinase; Provisional	91.46
PRK04040	188	adenylate kinase; Provisional	91.46
PRK09435	332	membrane ATPase/protein kinase; Provisional	91.44
PRK00279	215	adk adenylate kinase; Reviewed	91.38
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	91.36
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	91.34
PRK13975	196	thymidylate kinase; Provisional	91.31
COG4525	259	TauB ABC-type taurine transport system, ATPase com	91.27
PRK03992	389	proteasome-activating nucleotidase; Provisional	91.26
KOG1970|consensus	634		91.24
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	91.21
COG4178	604	ABC-type uncharacterized transport system, permeas	91.19
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	91.15
PRK14086	617	dnaA chromosomal replication initiation protein; P	91.09
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	91.04
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	91.04
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	91.03
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	91.0
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	90.91
PRK05057	172	aroK shikimate kinase I; Reviewed	90.9
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	90.9
PLN02200	234	adenylate kinase family protein	90.86
KOG1533|consensus	290		90.83
CHL00195	489	ycf46 Ycf46; Provisional	90.74
PRK03731	171	aroL shikimate kinase II; Reviewed	90.74
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	90.73
PRK10536	262	hypothetical protein; Provisional	90.69
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	90.66
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	90.66
KOG0727|consensus	408		90.61
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	90.61
PRK00698	205	tmk thymidylate kinase; Validated	90.59
PF00005	137	ABC_tran: ABC transporter This structure is on hol	90.56
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	90.56
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	90.54
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	90.54
PRK11545	163	gntK gluconate kinase 1; Provisional	90.53
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	90.52
KOG0736|consensus	953		90.49
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	90.42
PRK09825	176	idnK D-gluconate kinase; Provisional	90.42
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	90.39
PRK14737	186	gmk guanylate kinase; Provisional	90.36
PRK00889	175	adenylylsulfate kinase; Provisional	90.34
PRK05022	509	anaerobic nitric oxide reductase transcription reg	90.34
PHA02530	300	pseT polynucleotide kinase; Provisional	90.33
PF07726	131	AAA_3: ATPase family associated with various cellu	90.31
PRK04182	180	cytidylate kinase; Provisional	90.26
PF02456	369	Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR	90.24
PRK14529	223	adenylate kinase; Provisional	90.23
PRK07667	193	uridine kinase; Provisional	90.19
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	90.17
COG4619	223	ABC-type uncharacterized transport system, ATPase	90.13
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	90.09
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	90.09
PRK14526	211	adenylate kinase; Provisional	90.07
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	90.04
PRK10436	462	hypothetical protein; Provisional	90.01
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	90.01
PRK06526	254	transposase; Provisional	89.98
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	89.95
PRK13946	184	shikimate kinase; Provisional	89.79
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	89.79
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	89.77
KOG0743|consensus	457		89.76
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	89.72
COG2884	223	FtsE Predicted ATPase involved in cell division [C	89.72
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	89.69
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	89.65
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	89.62
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	89.62
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	89.61
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	89.6
PRK08356	195	hypothetical protein; Provisional	89.53
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	89.51
cd03269	210	ABC_putative_ATPase This subfamily is involved in	89.48
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	89.48
PRK09862	506	putative ATP-dependent protease; Provisional	89.47
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	89.47
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	89.46
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	89.46
PRK06620	214	hypothetical protein; Validated	89.46
PRK01184	184	hypothetical protein; Provisional	89.44
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	89.44
PRK10416	318	signal recognition particle-docking protein FtsY;	89.43
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	89.41
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	89.41
PF09439	181	SRPRB: Signal recognition particle receptor beta s	89.4
KOG0744|consensus	423		89.39
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	89.37
KOG1534|consensus	273		89.36
PHA00729	226	NTP-binding motif containing protein	89.35
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	89.34
COG4136	213	ABC-type uncharacterized transport system, ATPase	89.32
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	89.31
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	89.3
PRK08939	306	primosomal protein DnaI; Reviewed	89.27
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	89.25
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	89.25
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	89.24
cd02036	179	MinD Bacterial cell division requires the formatio	89.23
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	89.18
COG0283	222	Cmk Cytidylate kinase [Nucleotide transport and me	89.17
PLN03210	1153	Resistant to P. syringae 6; Provisional	89.15
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	89.15
TIGR02533	486	type_II_gspE general secretory pathway protein E.	89.14
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	89.11
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	89.1
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	89.08
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	89.08
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	89.08
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	89.07
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	89.07
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	89.07
PRK06761	282	hypothetical protein; Provisional	89.02
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	89.0
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	88.98
KOG2035|consensus	351		88.98
PRK13531	498	regulatory ATPase RavA; Provisional	88.93
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	88.89
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	88.88
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	88.86
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	88.83
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	88.82
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	88.79
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	88.77
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	88.75
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	88.74
PRK09183	259	transposase/IS protein; Provisional	88.71
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	88.71
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	88.68
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	88.67
PLN02674	244	adenylate kinase	88.65
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	88.61
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	88.53
TIGR00064	272	ftsY signal recognition particle-docking protein F	88.51
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	88.48
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	88.46
PRK04132	846	replication factor C small subunit; Provisional	88.46
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	88.45
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	88.44
PRK03846	198	adenylylsulfate kinase; Provisional	88.43
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	88.42
PRK12377	248	putative replication protein; Provisional	88.41
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	88.32
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	88.28
COG3638	258	ABC-type phosphate/phosphonate transport system, A	88.24
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	88.21
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	88.21
PRK13768	253	GTPase; Provisional	88.21
cd03273	251	ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC protein	88.15
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	88.09
KOG3354|consensus	191		88.07
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	88.07
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	88.03
PRK08903	227	DnaA regulatory inactivator Hda; Validated	88.02
PRK13948	182	shikimate kinase; Provisional	88.01
TIGR03819	340	heli_sec_ATPase helicase/secretion neighborhood AT	88.01
cd03216	163	ABC_Carb_Monos_I This family represents the domain	87.99
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	87.98
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	87.96
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	87.96
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	87.95
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	87.93
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	87.92
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	87.9
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	87.88
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	87.88
cd03116	159	MobB Molybdenum is an essential trace element in t	87.85
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	87.84
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	87.82
PRK14974	336	cell division protein FtsY; Provisional	87.81
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	87.8
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	87.73
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	87.72
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	87.69
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	87.67
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	87.62
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	87.62
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	87.59
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	87.57
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	87.56
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	87.56
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	87.56
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	87.55
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	87.54
KOG0738|consensus	491		87.53
cd03246	173	ABCC_Protease_Secretion This family represents the	87.53
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	87.51
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	87.51
PF13476	202	AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V	87.5
PRK10908	222	cell division protein FtsE; Provisional	87.48
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	87.46
cd03215	182	ABC_Carb_Monos_II This family represents domain II	87.39
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	87.35
PRK11608	326	pspF phage shock protein operon transcriptional ac	87.29
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	87.25
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	87.24
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	87.22
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	87.21
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	87.18
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	87.16
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	87.15
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	87.13
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	87.08
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	87.08
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	87.06
cd03234	226	ABCG_White The White subfamily represents ABC tran	87.06
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	87.06
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	87.04
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	87.03
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	87.02
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	87.01
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	86.99
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	86.95
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	86.95
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	86.94
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	86.93
KOG0731|consensus	774		86.9
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	86.9
PLN02459	261	probable adenylate kinase	86.89
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	86.89
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	86.89
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	86.87
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	86.85
PRK09087	226	hypothetical protein; Validated	86.81
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	86.81
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	86.8
cd03114	148	ArgK-like The function of this protein family is u	86.78
cd01385	692	MYSc_type_IX Myosin motor domain, type IX myosins.	86.77
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	86.74
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	86.72
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	86.71
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	86.71
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	86.71
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	86.7
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	86.67
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	86.64
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	86.63
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	86.61
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	86.6
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	86.59
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	86.57
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	86.56
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	86.55
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	86.51
PLN02748	468	tRNA dimethylallyltransferase	86.51
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	86.49
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	86.42
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	86.4
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	86.39
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	86.36
COG3950	440	Predicted ATP-binding protein involved in virulenc	86.35
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	86.33
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	86.32
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	86.28
PLN02165	334	adenylate isopentenyltransferase	86.26
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	86.25
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	86.25
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	86.24
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	86.23
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	86.22
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	86.22

>PF08393 DHC_N2: Dynein heavy chain, N-terminal region 2; InterPro: IPR013602 Dyneins are described as motor proteins of eukaryotic cells, as they can convert energy derived from the hydrolysis of ATP to force and movement along cytoskeletal polymers, such as microtubules

Probab=100.00  E-value=2.2e-33  Score=279.97  Aligned_cols=137  Identities=53%  Similarity=0.914  Sum_probs=131.0

Q ss_pred             CHHHHHHHHHHHhhhhhhhcccCchhhhhhChHHHhhHHHhHHHHHHHHHHhhcCCcchhhhhhhHHHHHHHHHHHHHHH
Q psy4734           1 MQDILDIWLQVQGTWMYLEPIFSSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLEL   80 (367)
Q Consensus         1 ~~~~l~~w~~~Q~~W~~L~~if~~~di~~~lp~e~~~f~~i~~~~~~i~~~~~~~~~~l~~~~~~~~l~~l~~~~~~Le~   80 (367)
                      ++++|+.|..||++|+||++||+++||+++||.|+++|+.|++.|+.+|..+.++|+++.+|..+++.+.|+.++..|+.
T Consensus       216 ~~~il~~w~~~Q~~W~yL~~if~~~di~~~lp~e~~~F~~i~~~~~~i~~~~~~~~~v~~~~~~~~~~~~l~~~~~~l~~  295 (408)
T PF08393_consen  216 IQEILEEWMEVQRKWMYLEPIFSSSDIKKQLPKEAKKFSSIDKEWRSIMKRAQKDPNVLSVCSNPDLLEKLESINESLEK  295 (408)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTSCCHCCCTHHHHHHHHHHHHHHHHHHHHHHCT-CCHHHCCSTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHcChHHHHHHHHHHhCcchhHHhhHhhHHHHHHHHHHHHHH
Confidence            46899999999999999999999889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcCcccccCHHHHHHHhhcCCCccchhhhHHHHHHHhHhhhhh
Q psy4734          81 IQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISG  137 (367)
Q Consensus        81 i~k~L~~yLe~KR~~FPRfyFLsdedLl~il~~~~~~~~i~~~l~k~f~~i~~l~~~  137 (367)
                      |+++|.+|||+||..|||||||||+||+++||.++||..+++|++|||+||..+.++
T Consensus       296 i~k~L~~~Le~kR~~FPRfyFlsd~eLl~ils~~~~~~~i~~~l~k~F~~i~~l~~~  352 (408)
T PF08393_consen  296 IQKSLNDYLESKREAFPRFYFLSDDELLEILSQSKDPEQIQPHLKKCFPGIKSLEFD  352 (408)
T ss_dssp             HHHHHHHHHHHHHHHSCCHHHC-HHHHHHHHHTTTTCHHHHHHHHHCCSSEEEEEE-
T ss_pred             HHHHHhHHHHHHHhhccceeecCcHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999999999998754

Dyneins generally contain one to three heavy chains, where each heavy chain consists of a C-terminal globular head, a flexible microtubule-binding stalk, and a flexible N-terminal tail known as the cargo-binding domain []. The two categories of dyneins are the axonemal dyneins, which produce the bending motions that propagate along cilia and flagella, and the cytosolic dyneins, which drive a variety of fundamental cellular processes including nuclear migration, organisation of the mitotic spindle, chromosome separation during mitosis, and the positioning and function of many intracellular organelles. Cytoplasmic dyneins contain several accessory subunits ranging from light to intermediate chains. This entry represents a region found C-terminal to the dynein heavy chain N-terminal region 1 (IPR013594 from INTERPRO) in many members of this family. No functions seem to have been attributed specifically to this region. ; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>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=5.8e-12  Score=106.78  Aligned_cols=125  Identities=25%  Similarity=0.299  Sum_probs=94.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecc--cccccccchHHHHHHHHh
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDS--ASHEWRDGILAKTFREMA  261 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~--~~~~W~dGil~~~~r~~~  261 (367)
                      .|+++||+|+|||++++.+++.++            .++... --+...+..+|+|.+++  ...+|.+|.+..++++. 
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~------------~~~~~i-~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~-   66 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLG------------RPVIRI-NCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKG-   66 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHT------------CEEEEE-E-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEE-
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhh------------cceEEE-Eeccccccccceeeeeecccccccccccccccccce-
Confidence            378999999999999999998872            122222 22334678899999986  45679999999999844 


Q ss_pred             cCCCCCceEEEEcCC--CChHhhhhhhhccCCCCceeecccceeecCCC------CeEEEecCCCC----ccCcchhhce
Q psy4734         262 VSTTPDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEIIKMSNT------MNLIFECENLE----FASPATVSRV  329 (367)
Q Consensus       262 ~~~~~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~------~~~ifE~~~l~----~asPatvsRc  329 (367)
                             .|+|+|.-  .++...+.|++++++.+......++.++.++.      +++|.-...-.    ..+||+.+||
T Consensus        67 -------~il~lDEin~a~~~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~Rf  139 (139)
T PF07728_consen   67 -------GILVLDEINRAPPEVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLDRF  139 (139)
T ss_dssp             -------EEEEESSCGG--HHHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHTT-
T ss_pred             -------eEEEECCcccCCHHHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHhhC
Confidence                   89999964  36899999999999988887777788887774      88888887777    8999999996

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.

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=99.09  E-value=1.3e-09  Score=117.98  Aligned_cols=116  Identities=10%  Similarity=0.028  Sum_probs=101.5

Q ss_pred             hhhhhhhcccC-chhhhhhChHHHhhHHHhHHHHHHHHHHhhcCCcchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4734          13 GTWMYLEPIFS-SEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHILQATEMEDMLKNFNKCNLMLELIQKGLNDYLEK   91 (367)
Q Consensus        13 ~~W~~L~~if~-~~di~~~lp~e~~~f~~i~~~~~~i~~~~~~~~~~l~~~~~~~~l~~l~~~~~~Le~i~k~L~~yLe~   91 (367)
                      -.|+.+..+.. ..|++..+|.+..+|..+...++.|.+++..-...+.....|.. +.|.-..+.+..|..++..+|+.
T Consensus       625 ~~~ld~y~~~~~~~dl~~~ip~~~~~~~sl~s~~~~i~~r~~~~~~~i~~i~~~~~-d~l~l~~~~~~~v~~si~~~l~~  703 (3164)
T COG5245         625 LRRLDEYLMMMSLEDLMPLIPHAVHRKMSLVSGVRGIYKRVVSGCEAINTILEDVG-DDLDLFYKEMDQVFMSIEKVLGL  703 (3164)
T ss_pred             HHHHHHHHHHhhhhhhcccccHHHHHHHHHHhhhhhhhhhhhcccchhheeeccCC-chHHHHHHHHHHHHHHHHHHHHH
Confidence            36999999996 59999999999999999999999999999776666666655544 33677788899999999999999


Q ss_pred             HhhhcCcccccCHHHHHHHhhcCCCccchhhhHHHHHHHh
Q psy4734          92 KRLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEAS  131 (367)
Q Consensus        92 KR~~FPRfyFLsdedLl~il~~~~~~~~i~~~l~k~f~~i  131 (367)
                      +|..|||  |+++|||+++++..++-....+++.|.|..+
T Consensus       704 ~~r~~~r--~~~~~~l~~~v~~~~~~~~~~~f~~k~~~~~  741 (3164)
T COG5245         704 RWREVER--ASEVEELMDRVRELENRVYSYRFFVKKIAKE  741 (3164)
T ss_pred             HHHhhhh--hcchHHHHHHHhcccchHHHHHHHHHHHhhH
Confidence            9999999  9999999999999999999999999987654

>PHA02244 ATPase-like protein

Probab=98.92  E-value=4.8e-09  Score=102.10  Aligned_cols=137  Identities=16%  Similarity=0.236  Sum_probs=102.4

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILA  254 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~  254 (367)
                      +.+.+.....+++.||+|+|||++.+.++..++              +.++.+|. -.+..++.|..+. .+.|.||.+.
T Consensus       112 i~r~l~~~~PVLL~GppGtGKTtLA~aLA~~lg--------------~pfv~In~-l~d~~~L~G~i~~-~g~~~dgpLl  175 (383)
T PHA02244        112 IAKIVNANIPVFLKGGAGSGKNHIAEQIAEALD--------------LDFYFMNA-IMDEFELKGFIDA-NGKFHETPFY  175 (383)
T ss_pred             HHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhC--------------CCEEEEec-ChHHHhhcccccc-cccccchHHH
Confidence            445667788899999999999999999887642              12334441 1234456776543 4589999999


Q ss_pred             HHHHHHhcCCCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC-----------Ccc
Q psy4734         255 KTFREMAVSTTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL-----------EFA  321 (367)
Q Consensus       255 ~~~r~~~~~~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l-----------~~a  321 (367)
                      ++++++        .|+++|.  ...+.-...|++++++. .+.+. |+++..++++++|+=....           ...
T Consensus       176 ~A~~~G--------gvLiLDEId~a~p~vq~~L~~lLd~r-~l~l~-g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L  245 (383)
T PHA02244        176 EAFKKG--------GLFFIDEIDASIPEALIIINSAIANK-FFDFA-DERVTAHEDFRVISAGNTLGKGADHIYVARNKI  245 (383)
T ss_pred             HHhhcC--------CEEEEeCcCcCCHHHHHHHHHHhccC-eEEec-CcEEecCCCEEEEEeeCCCccCcccccCCCccc
Confidence            998766        7999993  34577788999999874 56665 7789999999998865542           567


Q ss_pred             CcchhhceeeEEeccc
Q psy4734         322 SPATVSRVGMIYFELK  337 (367)
Q Consensus       322 sPatvsRcg~v~~~~~  337 (367)
                      .+|+++|+..|+++-.
T Consensus       246 ~~AllDRFv~I~~dyp  261 (383)
T PHA02244        246 DGATLDRFAPIEFDYD  261 (383)
T ss_pred             CHHHHhhcEEeeCCCC
Confidence            8999999999998753

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=98.82  E-value=2e-08  Score=94.64  Aligned_cols=141  Identities=17%  Similarity=0.177  Sum_probs=98.4

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecc-----------
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDS-----------  243 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~-----------  243 (367)
                      +..++.....+++.||+|+|||++.+.+++.++            .++.....++ ..+..+++|.+..           
T Consensus        14 ~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~lg------------~~~~~i~~~~-~~~~~dllg~~~~~~~~~~~~~~~   80 (262)
T TIGR02640        14 ALRYLKSGYPVHLRGPAGTGKTTLAMHVARKRD------------RPVMLINGDA-ELTTSDLVGSYAGYTRKKVHDQFI   80 (262)
T ss_pred             HHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHhC------------CCEEEEeCCc-cCCHHHHhhhhcccchhhHHHHHH
Confidence            344556667799999999999999999886442            1232222333 3444566665421           


Q ss_pred             ---------cccccccchHHHHHHHHhcCCCCCceEEEEcCC--CChHhhhhhhhccCCCCceeecc----cceeecCCC
Q psy4734         244 ---------ASHEWRDGILAKTFREMAVSTTPDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLIN----GEIIKMSNT  308 (367)
Q Consensus       244 ---------~~~~W~dGil~~~~r~~~~~~~~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~----ge~i~l~~~  308 (367)
                               ...+|.+|.+..++++.        .|+++|.-  .++.....|+++|++ +.+++++    ++.++++++
T Consensus        81 ~~~~~~~~~~~~~~~~g~l~~A~~~g--------~~lllDEi~r~~~~~q~~Ll~~Le~-~~~~i~~~~~~~~~i~~~~~  151 (262)
T TIGR02640        81 HNVVKLEDIVRQNWVDNRLTLAVREG--------FTLVYDEFTRSKPETNNVLLSVFEE-GVLELPGKRGTSRYVDVHPE  151 (262)
T ss_pred             HHhhhhhcccceeecCchHHHHHHcC--------CEEEEcchhhCCHHHHHHHHHHhcC-CeEEccCCCCCCceEecCCC
Confidence                     12369999998888643        69999943  567788888999986 6777765    467889999


Q ss_pred             CeEEEecCCCC------ccCcchhhceeeEEecccC
Q psy4734         309 MNLIFECENLE------FASPATVSRVGMIYFELKC  338 (367)
Q Consensus       309 ~~~ifE~~~l~------~asPatvsRcg~v~~~~~~  338 (367)
                      +++|+ |+|-.      ..++|...||..++++--+
T Consensus       152 frvIa-TsN~~~~~g~~~l~~aL~~R~~~i~i~~P~  186 (262)
T TIGR02640       152 FRVIF-TSNPVEYAGVHETQDALLDRLITIFMDYPD  186 (262)
T ss_pred             CEEEE-eeCCccccceecccHHHHhhcEEEECCCCC
Confidence            98877 44422      3477999999999987543

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).

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=98.78  E-value=1.3e-09  Score=117.89  Aligned_cols=145  Identities=28%  Similarity=0.535  Sum_probs=115.0

Q ss_pred             hHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchH
Q psy4734         174 HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGIL  253 (367)
Q Consensus       174 ~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil  253 (367)
                      .+..++..+.++..+|-.|-||..+...-..+..-.+               -+||-  ++-|++|.-+..+++|.|-+.
T Consensus      1821 ~l~HiLr~~R~l~~vggh~~l~g~~~~g~~~~~efvc---------------wlN~~--~m~e~~~hr~~~~~Df~d~lk 1883 (3164)
T COG5245        1821 ALLHILRSRRGLLVVGGHGVLKGVLIRGACDAREFVC---------------WLNPR--NMREIFGHRDELTGDFRDSLK 1883 (3164)
T ss_pred             HHHHHHHHHHHHHHhccchhhhhhhhhhhHHHHHHHH---------------HhCcc--chhhhhcccccchhhHHHHHH
Confidence            3555677777777777666666655443222211111               14554  567999999999999999999


Q ss_pred             HHHHHHHhcCCCCCceEEEEcC-CCChHhhhhhhhccCCCCceeeccc-ceeecCCCCeEEEecCCCCccCcchhhceee
Q psy4734         254 AKTFREMAVSTTPDRKWIMFDG-PIDAVWIENMNTVLDDNKKLCLING-EIIKMSNTMNLIFECENLEFASPATVSRVGM  331 (367)
Q Consensus       254 ~~~~r~~~~~~~~~~~wivfDG-~~d~~wie~lnsvlddn~~l~L~~g-e~i~l~~~~~~ifE~~~l~~asPatvsRcg~  331 (367)
                      ...+|..  ..+....|+|+|| ++.+.|+|.||++||.|+.+||.+| |++++++|.|.+||...|..-||+|+.|.-|
T Consensus      1884 ~~~~~~~--~~~~r~Cl~I~Esi~~es~fLe~~N~LL~n~~~~~lf~gne~~~I~~nlr~~~es~~L~~dTe~tlt~vFl 1961 (3164)
T COG5245        1884 VQDLRRN--IHGGRECLFIFESIPVESSFLEDFNPLLDNNRFLCLFSGNERIRIPENLRFVFESTSLEKDTEATLTRVFL 1961 (3164)
T ss_pred             HHHHhcc--ccCCceEEEEecCCccchHHHHHhhhhhhccccchhccchhHHHHHHHHHhhhhccccccCCHHHHHHHHH
Confidence            8888754  3456679999999 9999999999999999999999999 9999999999999999999999999999888


Q ss_pred             EEeccc
Q psy4734         332 IYFELK  337 (367)
Q Consensus       332 v~~~~~  337 (367)
                      +||..+
T Consensus      1962 ~~~~~N 1967 (3164)
T COG5245        1962 VYMEEN 1967 (3164)
T ss_pred             HHHHhc
Confidence            877543

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

Probab=98.77  E-value=2.4e-08  Score=109.24  Aligned_cols=137  Identities=23%  Similarity=0.332  Sum_probs=103.9

Q ss_pred             HHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeC-CCCCcccccccee---cccccccccchH
Q psy4734         178 IFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIIN-PKSITMGQLYGEF---DSASHEWRDGIL  253 (367)
Q Consensus       178 ~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~in-pka~t~~~l~G~~---d~~~~~W~dGil  253 (367)
                      +...+-.+++.||+.||||+.+..|++....              ....|| ...-..+++.|.|   |..+-++++|++
T Consensus       884 ~s~~~fP~LiQGpTSSGKTSMI~yla~~tgh--------------kfVRINNHEHTdlqeYiGTyvTdd~G~lsFkEGvL  949 (4600)
T COG5271         884 ASLSNFPLLIQGPTSSGKTSMILYLARETGH--------------KFVRINNHEHTDLQEYIGTYVTDDDGSLSFKEGVL  949 (4600)
T ss_pred             HhhcCCcEEEecCCCCCcchHHHHHHHHhCc--------------cEEEecCcccchHHHHhhceeecCCCceeeehhHH
Confidence            3445566888899999999999988865421              123454 4555699999998   333347999999


Q ss_pred             HHHHHHHhcCCCCCceEEEEcCC--CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-------CCccCcc
Q psy4734         254 AKTFREMAVSTTPDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-------LEFASPA  324 (367)
Q Consensus       254 ~~~~r~~~~~~~~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-------l~~asPa  324 (367)
                      .-++|++        .|||+|--  ..+.-.|.||.+||||+.|..|..+.+..|..=..+|.|.+       =++.|-|
T Consensus       950 VeAlR~G--------yWIVLDELNLApTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrA 1021 (4600)
T COG5271         950 VEALRRG--------YWIVLDELNLAPTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRA 1021 (4600)
T ss_pred             HHHHhcC--------cEEEeeccccCcHHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHH
Confidence            9999998        99999932  34558899999999999999999977776766668999998       2346677


Q ss_pred             hhhceeeEEecc
Q psy4734         325 TVSRVGMIYFEL  336 (367)
Q Consensus       325 tvsRcg~v~~~~  336 (367)
                      .-.|.--+|++.
T Consensus      1022 FRNRFlE~hFdd 1033 (4600)
T COG5271        1022 FRNRFLEMHFDD 1033 (4600)
T ss_pred             HHhhhHhhhccc
Confidence            777766666653

>PF08393 DHC_N2: Dynein heavy chain, N-terminal region 2; InterPro: IPR013602 Dyneins are described as motor proteins of eukaryotic cells, as they can convert energy derived from the hydrolysis of ATP to force and movement along cytoskeletal polymers, such as microtubules

Probab=98.71  E-value=6.6e-09  Score=103.82  Aligned_cols=124  Identities=35%  Similarity=0.495  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hcCcccccCH-----------------HHHHHHhhc-CCCcc--------
Q psy4734          66 DMLKNFNKCNLMLELIQKGLNDYLEKKRL-FFPRFFFLSN-----------------DELLEILSE-TKDPL--------  118 (367)
Q Consensus        66 ~~l~~l~~~~~~Le~i~k~L~~yLe~KR~-~FPRfyFLsd-----------------edLl~il~~-~~~~~--------  118 (367)
                      .+......+...|..++..|+.|.+.||. .+-.-.|-++                 .+...++.. .++|.        
T Consensus       201 ~~~~~v~~w~~~L~~~~~il~~w~~~Q~~W~yL~~if~~~di~~~lp~e~~~F~~i~~~~~~i~~~~~~~~~v~~~~~~~  280 (408)
T PF08393_consen  201 PFRDEVEEWEKKLNNIQEILEEWMEVQRKWMYLEPIFSSSDIKKQLPKEAKKFSSIDKEWRSIMKRAQKDPNVLSVCSNP  280 (408)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCCHCCCTHHHHHHHHHHHHHHHHHHHHHHCT-CCHHHCCST
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHcChHHHHHHHHHHhCcchhHHhhHh
Confidence            34556778888999999999999999998 2222233332                 122333222 12222        


Q ss_pred             chhhhHHHHHHHhHhhhhhhhhhh--cccCCCceeecchHHHHHHHHhcCCcccchhhHHHHHhhhhhheecc
Q psy4734         119 RVQPHLKKIFEASMALISGLVATL--NLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVG  189 (367)
Q Consensus       119 ~i~~~l~k~f~~i~~l~~~l~~~~--~~~~fprf~f~s~~~Ll~ils~~~~~~~lq~~l~k~~~~~~~v~~~g  189 (367)
                      .+...+..+......+..++.+.+  +|..||||||+||+||++++|.+++|..+++|+.|||.+.+.+.+..
T Consensus       281 ~~~~~l~~~~~~l~~i~k~L~~~Le~kR~~FPRfyFlsd~eLl~ils~~~~~~~i~~~l~k~F~~i~~l~~~~  353 (408)
T PF08393_consen  281 DLLEKLESINESLEKIQKSLNDYLESKREAFPRFYFLSDDELLEILSQSKDPEQIQPHLKKCFPGIKSLEFDE  353 (408)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCHHHC-HHHHHHHHHTTTTCHHHHHHHHHCCSSEEEEEE-T
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHHHHHHhhccceeecCcHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHhcc
Confidence            234455556666666677777755  88899999999999999999999999999999999999999988854

Dyneins generally contain one to three heavy chains, where each heavy chain consists of a C-terminal globular head, a flexible microtubule-binding stalk, and a flexible N-terminal tail known as the cargo-binding domain []. The two categories of dyneins are the axonemal dyneins, which produce the bending motions that propagate along cilia and flagella, and the cytosolic dyneins, which drive a variety of fundamental cellular processes including nuclear migration, organisation of the mitotic spindle, chromosome separation during mitosis, and the positioning and function of many intracellular organelles. Cytoplasmic dyneins contain several accessory subunits ranging from light to intermediate chains. This entry represents a region found C-terminal to the dynein heavy chain N-terminal region 1 (IPR013594 from INTERPRO) in many members of this family. No functions seem to have been attributed specifically to this region. ; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=98.65  E-value=1.5e-07  Score=90.61  Aligned_cols=134  Identities=21%  Similarity=0.253  Sum_probs=94.3

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcccccccee--c--ccc--cccccchH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEF--D--SAS--HEWRDGIL  253 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~--d--~~~--~~W~dGil  253 (367)
                      .....+++.|++|+|||++.+.+++.++.            ++.....++. ++..++.|..  .  ...  .+|.||.+
T Consensus        62 ~~~~~ilL~G~pGtGKTtla~~lA~~l~~------------~~~rV~~~~~-l~~~DliG~~~~~l~~g~~~~~f~~GpL  128 (327)
T TIGR01650        62 AYDRRVMVQGYHGTGKSTHIEQIAARLNW------------PCVRVNLDSH-VSRIDLVGKDAIVLKDGKQITEFRDGIL  128 (327)
T ss_pred             hcCCcEEEEeCCCChHHHHHHHHHHHHCC------------CeEEEEecCC-CChhhcCCCceeeccCCcceeEEecCcc
Confidence            44567999999999999999999988752            1221222333 5667788863  2  111  47999999


Q ss_pred             HHHHHHHhcCCCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecc-cceeecCCCCeEEEecCCC-C----------
Q psy4734         254 AKTFREMAVSTTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLIN-GEIIKMSNTMNLIFECENL-E----------  319 (367)
Q Consensus       254 ~~~~r~~~~~~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~-ge~i~l~~~~~~ifE~~~l-~----------  319 (367)
                      +.+++..        .|+++|.  ..++.-...||++||+.+.+++.. |+.|..+|.+++| -|.|- .          
T Consensus       129 ~~A~~~g--------~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~Frvi-AT~Np~g~Gd~~G~y~G  199 (327)
T TIGR01650       129 PWALQHN--------VALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLF-ATANTIGLGDTTGLYHG  199 (327)
T ss_pred             hhHHhCC--------eEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEE-EeeCCCCcCCCCcceee
Confidence            9999865        8999992  235556677888999988999864 6777777777655 45553 1          


Q ss_pred             --ccCcchhhceeeE-Eec
Q psy4734         320 --FASPATVSRVGMI-YFE  335 (367)
Q Consensus       320 --~asPatvsRcg~v-~~~  335 (367)
                        ...+|+..|..++ .++
T Consensus       200 t~~l~~A~lDRF~i~~~~~  218 (327)
T TIGR01650       200 TQQINQAQMDRWSIVTTLN  218 (327)
T ss_pred             eecCCHHHHhheeeEeeCC
Confidence              1357999999876 354

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.

>KOG1808|consensus

Probab=98.39  E-value=2.7e-07  Score=104.18  Aligned_cols=134  Identities=22%  Similarity=0.356  Sum_probs=103.8

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccce-eccccc--ccccchHHHH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE-FDSASH--EWRDGILAKT  256 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~-~d~~~~--~W~dGil~~~  256 (367)
                      ..+-.+.|.||++||||.+++-|+++.+.-.             ....|....+..++.|. +...++  .|++|++..+
T Consensus       438 ~~~~pillqG~tssGKtsii~~la~~~g~~~-------------vrinnhehtd~qeyig~y~~~~~g~l~freg~LV~A  504 (1856)
T KOG1808|consen  438 SGKFPILLQGPTSSGKTSIIKELARATGKNI-------------VRINNHEHTDLQEYIGTYVADDNGDLVFREGVLVQA  504 (1856)
T ss_pred             cCCCCeEEecCcCcCchhHHHHHHHHhccCc-------------eehhccccchHHHHHHhhhcCCCCCeeeehhHHHHH
Confidence            3445688999999999999999998874211             12345566689999994 433344  5999999999


Q ss_pred             HHHHhcCCCCCceEEEEcC-C-CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC-------ccCcchhh
Q psy4734         257 FREMAVSTTPDRKWIMFDG-P-IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE-------FASPATVS  327 (367)
Q Consensus       257 ~r~~~~~~~~~~~wivfDG-~-~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~-------~asPatvs  327 (367)
                      +|++        .|+|||| . ....-+|.||.++|||+.|.++.|.|..-+....++|-|.+-.       ..|-|..+
T Consensus       505 lr~G--------~~~vlD~lnla~~dvL~aLnrllddnRel~ipe~~rlv~~h~~f~lfatqn~~~~y~grk~lsRa~~~  576 (1856)
T KOG1808|consen  505 LRNG--------DWIVLDELNLAPHDVLEALNRLLDDNRELFIPETQRLVKAHPEFMLFATQNPPGTYGGRKILSRALRN  576 (1856)
T ss_pred             HHhC--------CEEEeccccccchHHHHHHHhhhhhhccccccccceeeccCcchhhhhhccCccccchhhhhhhcccc
Confidence            9999        9999998 3 4666899999999999999999999999888888999887754       24445555


Q ss_pred             ceeeEEe
Q psy4734         328 RVGMIYF  334 (367)
Q Consensus       328 Rcg~v~~  334 (367)
                      |...+++
T Consensus       577 rf~e~~f  583 (1856)
T KOG1808|consen  577 RFIELHF  583 (1856)
T ss_pred             cchhhhh
Confidence            5555554

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

Probab=98.37  E-value=1.2e-05  Score=80.64  Aligned_cols=244  Identities=16%  Similarity=0.181  Sum_probs=137.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhcC----cccccCHHHHHHHhhcCCCccchhhhHHHHHHHhHhhhhhhhhhhcccCCCce
Q psy4734          75 NLMLELIQKGLNDYLEKKRLFFP----RFFFLSNDELLEILSETKDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRF  150 (367)
Q Consensus        75 ~~~Le~i~k~L~~yLe~KR~~FP----RfyFLsdedLl~il~~~~~~~~i~~~l~k~f~~i~~l~~~l~~~~~~~~fprf  150 (367)
                      ......|.+...+|+..+.-..|    +.|.-++-|+.+    .-++..++..|...-.++..+...-.+.    .-|.-
T Consensus        92 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~l~~~i~~~~~~~~s~~~~----~~p~~  163 (459)
T PRK11331         92 WQFSSDIPKTIAEYFQATSGVYPKKYGQSYYACSQKVSQ----GLDYTRFASMLDNIINDYKLIFNSGKSV----IPPMS  163 (459)
T ss_pred             HHHHhhHHHHHHHHHhcccCCCccccCceeEeecccccc----CCCHHHHHHHHhhHHHHHHHhhcccccc----CCchh
Confidence            34446688889999988655555    455555655433    3344444444333333333222111111    11110


Q ss_pred             eecchHHHHHHHHhcCCcccchhhHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCC
Q psy4734         151 FFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPK  230 (367)
Q Consensus       151 ~f~s~~~Ll~ils~~~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpk  230 (367)
                      - ...-.+...+++..-+......+...+.....+++.||||+|||++.+.++..+..-.       ...++....+.| 
T Consensus       164 ~-~~~y~~~~~l~d~~i~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~~~~-------~~~~v~~VtFHp-  234 (459)
T PRK11331        164 K-TESYCLEDALNDLFIPETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLTGEK-------APQRVNMVQFHQ-  234 (459)
T ss_pred             c-ccchhHHHHhhcccCCHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhcCCc-------ccceeeEEeecc-
Confidence            0 0000111222222222222333444556678899999999999999999887764210       012344433443 


Q ss_pred             CCccccccceeccc--ccccccchHHHHHHHHhcCCCCCceEEEEc----CCCChHhhhhhhhccCCCC-----ceeec-
Q psy4734         231 SITMGQLYGEFDSA--SHEWRDGILAKTFREMAVSTTPDRKWIMFD----GPIDAVWIENMNTVLDDNK-----KLCLI-  298 (367)
Q Consensus       231 a~t~~~l~G~~d~~--~~~W~dGil~~~~r~~~~~~~~~~~wivfD----G~~d~~wie~lnsvlddn~-----~l~L~-  298 (367)
                      ..+..++.|.+.|.  ...|.+|+|.++.+++... ...+.++|+|    |+++..+=|.+ ++|+..+     .+.|+ 
T Consensus       235 sySYeDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~-p~~~~vliIDEINRani~kiFGel~-~lLE~~~rg~~~~v~l~y  312 (459)
T PRK11331        235 SYSYEDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQ-PEKKYVFIIDEINRANLSKVFGEVM-MLMEHDKRGENWSVPLTY  312 (459)
T ss_pred             cccHHHHhcccCCCCCCeEecCchHHHHHHHHHhc-ccCCcEEEEehhhccCHHHhhhhhh-hhccccccccccceeeec
Confidence            34556666555443  3468999999998887543 3456899999    44444444443 3555321     23332 


Q ss_pred             ---ccceeecCCCCeEEEecCC----CCccCcchhhceeeEEeccc
Q psy4734         299 ---NGEIIKMSNTMNLIFECEN----LEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       299 ---~ge~i~l~~~~~~ifE~~~----l~~asPatvsRcg~v~~~~~  337 (367)
                         +++.+.+|+++++|-=+..    +....+|..-|-..|.+.|.
T Consensus       313 ~e~d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrRRF~fi~i~p~  358 (459)
T PRK11331        313 SENDEERFYVPENVYIIGLMNTADRSLAVVDYALRRRFSFIDIEPG  358 (459)
T ss_pred             cccccccccCCCCeEEEEecCccccchhhccHHHHhhhheEEecCC
Confidence               2578999999987755433    33578899999999999985

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

Probab=98.14  E-value=3.9e-06  Score=92.74  Aligned_cols=135  Identities=17%  Similarity=0.297  Sum_probs=107.3

Q ss_pred             HhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccceecccc--c--ccccchH
Q psy4734         179 FEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGEFDSAS--H--EWRDGIL  253 (367)
Q Consensus       179 ~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~~d~~~--~--~W~dGil  253 (367)
                      +++..++++.|.||.|||+++..||...+.              ....||-... .+-+|||..-|+.  +  .|.|..|
T Consensus      1540 mqv~kpilLEGsPGVGKTSlItaLAr~tG~--------------kliRINLSeQTdL~DLfGsd~Pve~~Gef~w~dapf 1605 (4600)
T COG5271        1540 MQVGKPILLEGSPGVGKTSLITALARKTGK--------------KLIRINLSEQTDLCDLFGSDLPVEEGGEFRWMDAPF 1605 (4600)
T ss_pred             HhcCCceeecCCCCccHHHHHHHHHHHhcC--------------ceEEeeccccchHHHHhCCCCCcccCceeEecccHH
Confidence            567788999999999999999988765432              2445776655 4778999987765  3  3999999


Q ss_pred             HHHHHHHhcCCCCCceEEEEcCC--CChHhhhhhhhccCCCCceeecccce-eecCCCCeEEEecCCCCc-------cCc
Q psy4734         254 AKTFREMAVSTTPDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEI-IKMSNTMNLIFECENLEF-------ASP  323 (367)
Q Consensus       254 ~~~~r~~~~~~~~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~-i~l~~~~~~ifE~~~l~~-------asP  323 (367)
                      ..+||.+        .|+++|--  ....-+|.||++||+.+....|.-+. ..+.|+++ +|.+.+-.+       ...
T Consensus      1606 L~amr~G--------~WVlLDEiNLaSQSVlEGLNacLDhR~eayIPEld~~f~~Hpnfr-VFAaqNPq~qggGRKgLPk 1676 (4600)
T COG5271        1606 LHAMRDG--------GWVLLDEINLASQSVLEGLNACLDHRREAYIPELDKTFDVHPNFR-VFAAQNPQDQGGGRKGLPK 1676 (4600)
T ss_pred             HHHhhcC--------CEEEeehhhhhHHHHHHHHHHHHhhccccccccccceeeccCCee-eeeecCchhcCCCcccCCH
Confidence            9999988        99999932  35678999999999999999987764 45778875 667777543       455


Q ss_pred             chhhceeeEEecc
Q psy4734         324 ATVSRVGMIYFEL  336 (367)
Q Consensus       324 atvsRcg~v~~~~  336 (367)
                      +.+.|..+|||+.
T Consensus      1677 SF~nRFsvV~~d~ 1689 (4600)
T COG5271        1677 SFLNRFSVVKMDG 1689 (4600)
T ss_pred             HHhhhhheEEecc
Confidence            9999999999985

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.62  E-value=0.0079  Score=63.51  Aligned_cols=166  Identities=18%  Similarity=0.232  Sum_probs=81.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcc------ccccceecccccccccchHHH-
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITM------GQLYGEFDSASHEWRDGILAK-  255 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~------~~l~G~~d~~~~~W~dGil~~-  255 (367)
                      ..+.|.||+|+||||+.+.+............    .....+..++...+..      ..++|..       .+..... 
T Consensus       176 ~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~----~~~~~fv~i~~~~l~~d~~~i~~~llg~~-------~~~~~~~a  244 (615)
T TIGR02903       176 QHIILYGPPGVGKTTAARLALEEAKKLKHTPF----AEDAPFVEVDGTTLRWDPREVTNPLLGSV-------HDPIYQGA  244 (615)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhhhhccCCcc----cCCCCeEEEechhccCCHHHHhHHhcCCc-------cHHHHHHH
Confidence            35888999999999999988765432211100    0011233444433321      1345532       1111111 


Q ss_pred             --HHHHHhcC-------CCCCceEEEEc--CCCChHhhhhhhhccCCCCceeeccc------cee--------e--cCCC
Q psy4734         256 --TFREMAVS-------TTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLING------EII--------K--MSNT  308 (367)
Q Consensus       256 --~~r~~~~~-------~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~g------e~i--------~--l~~~  308 (367)
                        .++.....       +....--+++|  +.+|+.-.+.|-.++.+.+..-. ++      +.+        .  .+.+
T Consensus       245 ~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~-~~~~~~~~~~~~~~ik~~~~~~~~~~  323 (615)
T TIGR02903       245 RRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFS-SSYYDPDDPNVPKYIKKLFEEGAPAD  323 (615)
T ss_pred             HHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEee-cceeccCCcccchhhhhhcccCccce
Confidence              11111000       01112378888  44566666777777766443322 22      100        0  1223


Q ss_pred             CeEEEecC-CCCccCcchhhceeeEEecccCC-chHHHHHHHHHHhhhhhhHHH
Q psy4734         309 MNLIFECE-NLEFASPATVSRVGMIYFELKCI-SWTTFFLSYQNELKEKLNEEQ  360 (367)
Q Consensus       309 ~~~ifE~~-~l~~asPatvsRcg~v~~~~~~~-~~~~~~~swl~~~~~~~~~~~  360 (367)
                      +.++.-|+ +.....|+..|||..+++.+-.- ....++..-+......+.++.
T Consensus       324 ~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v~ls~ea  377 (615)
T TIGR02903       324 FVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINVHLAAGV  377 (615)
T ss_pred             EEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHH
Confidence            44444443 46678899999999999987431 133444444443322344443

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.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.55  E-value=0.00015  Score=71.68  Aligned_cols=139  Identities=20%  Similarity=0.186  Sum_probs=73.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccc--cceecccccccccchHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQL--YGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l--~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      .|.++|.||+|+||||+.+.+++++.--....     ..+... ..++..+..+..  +..+|+.++...+- +..++..
T Consensus        38 ~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~-----~~pc~~-c~~c~~~~~~~~~d~~~~~~~~~~~v~~-ir~i~~~  110 (363)
T PRK14961         38 HHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT-----SNPCRK-CIICKEIEKGLCLDLIEIDAASRTKVEE-MREILDN  110 (363)
T ss_pred             CeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC-----CCCCCC-CHHHHHHhcCCCCceEEecccccCCHHH-HHHHHHH
Confidence            46789999999999999999998875110000     000000 000000000000  11123322111111 2223322


Q ss_pred             HhcCC-CCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         260 MAVST-TPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       260 ~~~~~-~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                      +.... ....+.+|+|. +|..--+..|.+|.        .-|  ..++++.+||-+++.....|+..|||-.+.+.+-.
T Consensus       111 ~~~~p~~~~~kviIIDE-a~~l~~~a~naLLk--------~lE--e~~~~~~fIl~t~~~~~l~~tI~SRc~~~~~~~l~  179 (363)
T PRK14961        111 IYYSPSKSRFKVYLIDE-VHMLSRHSFNALLK--------TLE--EPPQHIKFILATTDVEKIPKTILSRCLQFKLKIIS  179 (363)
T ss_pred             HhcCcccCCceEEEEEC-hhhcCHHHHHHHHH--------HHh--cCCCCeEEEEEcCChHhhhHHHHhhceEEeCCCCC
Confidence            22222 24568999994 55444344444331        111  13557788998989888888889999999888754

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.50  E-value=0.00027  Score=74.90  Aligned_cols=146  Identities=18%  Similarity=0.190  Sum_probs=81.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc---cccccceecccccccccch--HHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT---MGQLYGEFDSASHEWRDGI--LAKT  256 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t---~~~l~G~~d~~~~~W~dGi--l~~~  256 (367)
                      .|.++|.|++|+||||+.+.+++.++--....     ..+... .-++..+.   ..++ =.+|..++   .|+  +-.+
T Consensus        38 ~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~-----~~PCG~-C~sCr~I~~G~h~Dv-iEIDAas~---rgVDdIReL  107 (830)
T PRK07003         38 HHAYLFTGTRGVGKTTLSRIFAKALNCETGVT-----SQPCGV-CRACREIDEGRFVDY-VEMDAASN---RGVDEMAAL  107 (830)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCccCCC-----CCCCcc-cHHHHHHhcCCCceE-EEeccccc---ccHHHHHHH
Confidence            56788999999999999999999885211000     000000 00000000   0011 11232221   122  2223


Q ss_pred             HHHHhc-CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEec
Q psy4734         257 FREMAV-STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE  335 (367)
Q Consensus       257 ~r~~~~-~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~  335 (367)
                      ++.... ......|.+|+| ++|..--+..|.+|.     +|   |  .-+++++|||-+++...+.|...|||-.+.+.
T Consensus       108 Ie~a~~~P~~gr~KVIIID-Eah~LT~~A~NALLK-----tL---E--EPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk  176 (830)
T PRK07003        108 LERAVYAPVDARFKVYMID-EVHMLTNHAFNAMLK-----TL---E--EPPPHVKFILATTDPQKIPVTVLSRCLQFNLK  176 (830)
T ss_pred             HHHHHhccccCCceEEEEe-ChhhCCHHHHHHHHH-----HH---H--hcCCCeEEEEEECChhhccchhhhheEEEecC
Confidence            333221 123457899999 566555555565531     01   1  23668999999999999999999999999997


Q ss_pred             ccCCchHHHHHHHHHH
Q psy4734         336 LKCISWTTFFLSYQNE  351 (367)
Q Consensus       336 ~~~~~~~~~~~swl~~  351 (367)
                      +-..   .-+..||..
T Consensus       177 ~Ls~---eeIv~~L~~  189 (830)
T PRK07003        177 QMPA---GHIVSHLER  189 (830)
T ss_pred             CcCH---HHHHHHHHH
Confidence            6432   334445444

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.48  E-value=0.00013  Score=75.15  Aligned_cols=141  Identities=17%  Similarity=0.134  Sum_probs=81.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhcc----------ccccceeEEEEeCCCCCccccccceeccccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSA----------TMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRD  250 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~----------~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~d  250 (367)
                      ..|..+|.||+|+||||+.+.++++++-.......          -..+....+..+              |+.++   .
T Consensus        37 l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~ei--------------daas~---~   99 (509)
T PRK14958         37 LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEV--------------DAASR---T   99 (509)
T ss_pred             CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEE--------------ccccc---C
Confidence            35667899999999999999999998632110000          000111112222              32221   1


Q ss_pred             chHHHHHHHHhc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcch
Q psy4734         251 GILAKTFREMAV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPAT  325 (367)
Q Consensus       251 Gil~~~~r~~~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPat  325 (367)
                      |+  .-+|+...     ......|.+|+| .+|..-.+..|.+|.     +|-     ..|+++.|||-+++.....|..
T Consensus       100 ~v--~~iR~l~~~~~~~p~~~~~kV~iID-E~~~ls~~a~naLLk-----~LE-----epp~~~~fIlattd~~kl~~tI  166 (509)
T PRK14958        100 KV--EDTRELLDNIPYAPTKGRFKVYLID-EVHMLSGHSFNALLK-----TLE-----EPPSHVKFILATTDHHKLPVTV  166 (509)
T ss_pred             CH--HHHHHHHHHHhhccccCCcEEEEEE-ChHhcCHHHHHHHHH-----HHh-----ccCCCeEEEEEECChHhchHHH
Confidence            11  11222221     223457999999 566555566665541     111     2467899999999998888888


Q ss_pred             hhceeeEEecccC-CchHHHHHHHHHH
Q psy4734         326 VSRVGMIYFELKC-ISWTTFFLSYQNE  351 (367)
Q Consensus       326 vsRcg~v~~~~~~-~~~~~~~~swl~~  351 (367)
                      .|||-.+.+.+-. -.....+..+++.
T Consensus       167 ~SRc~~~~f~~l~~~~i~~~l~~il~~  193 (509)
T PRK14958        167 LSRCLQFHLAQLPPLQIAAHCQHLLKE  193 (509)
T ss_pred             HHHhhhhhcCCCCHHHHHHHHHHHHHH
Confidence            9999999997643 2233444445443

>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=97.48  E-value=0.0002  Score=59.07  Aligned_cols=113  Identities=20%  Similarity=0.287  Sum_probs=67.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcCC
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVST  264 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~~  264 (367)
                      +++.||+|+|||++++.++..++              +....+++..+. +...|..        ...+..+++++....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~--------------~~~~~i~~~~~~-~~~~~~~--------~~~i~~~~~~~~~~~   57 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG--------------FPFIEIDGSELI-SSYAGDS--------EQKIRDFFKKAKKSA   57 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT--------------SEEEEEETTHHH-TSSTTHH--------HHHHHHHHHHHHHTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc--------------cccccccccccc-ccccccc--------ccccccccccccccc
Confidence            46889999999999999988762              223334444332 1111111        112444455443322


Q ss_pred             CCCceEEEEcCCCChHhhhh-----------hh---hccCCCCceeecccceeecCCCCeEEEecCCCCccCcchh-hce
Q psy4734         265 TPDRKWIMFDGPIDAVWIEN-----------MN---TVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATV-SRV  329 (367)
Q Consensus       265 ~~~~~wivfDG~~d~~wie~-----------ln---svlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatv-sRc  329 (367)
                        .+.-+++| ++|...-..           ++   ..++....-          ..++.+|+-+.+.....|+.. +||
T Consensus        58 --~~~vl~iD-e~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~----------~~~~~vI~ttn~~~~i~~~l~~~rf  124 (132)
T PF00004_consen   58 --KPCVLFID-EIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSK----------NSRVIVIATTNSPDKIDPALLRSRF  124 (132)
T ss_dssp             --TSEEEEEE-TGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTT----------SSSEEEEEEESSGGGSCHHHHSTTS
T ss_pred             --cceeeeec-cchhcccccccccccccccccceeeecccccccc----------cccceeEEeeCChhhCCHhHHhCCC
Confidence              46889999 665554444           22   222321111          456778888888999999999 998


Q ss_pred             eeEE
Q psy4734         330 GMIY  333 (367)
Q Consensus       330 g~v~  333 (367)
                      ....
T Consensus       125 ~~~i  128 (132)
T PF00004_consen  125 DRRI  128 (132)
T ss_dssp             EEEE
T ss_pred             cEEE
Confidence            7653

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 ....

>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=97.41  E-value=0.00044  Score=60.36  Aligned_cols=134  Identities=22%  Similarity=0.241  Sum_probs=72.6

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhcc---------ccccceeEEEEeCCCCCccccccceecccccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSA---------TMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDG  251 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~---------~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dG  251 (367)
                      ..|.++|.||+|+||++++..+++.+.--.....+         ......-.++.+.|..-.            ....-.
T Consensus        18 l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~------------~~i~i~   85 (162)
T PF13177_consen   18 LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKK------------KSIKID   85 (162)
T ss_dssp             --SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSS------------SSBSHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEeccccc------------chhhHH
Confidence            45778999999999999999998876322211000         000001111112222110            011100


Q ss_pred             hHHHHHHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee
Q psy4734         252 ILAKTFREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG  330 (367)
Q Consensus       252 il~~~~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg  330 (367)
                      -+-.+...+... .....|-+|+| ++|..-.+.-|.+|-   +|     |  ..|+++.||+=+++....-|...|||-
T Consensus        86 ~ir~i~~~~~~~~~~~~~KviiI~-~ad~l~~~a~NaLLK---~L-----E--epp~~~~fiL~t~~~~~il~TI~SRc~  154 (162)
T PF13177_consen   86 QIREIIEFLSLSPSEGKYKVIIID-EADKLTEEAQNALLK---TL-----E--EPPENTYFILITNNPSKILPTIRSRCQ  154 (162)
T ss_dssp             HHHHHHHHCTSS-TTSSSEEEEEE-TGGGS-HHHHHHHHH---HH-----H--STTTTEEEEEEES-GGGS-HHHHTTSE
T ss_pred             HHHHHHHHHHHHHhcCCceEEEee-hHhhhhHHHHHHHHH---Hh-----c--CCCCCEEEEEEECChHHChHHHHhhce
Confidence            111222222222 23468999999 677666777777651   11     1  236689999999999999999999999


Q ss_pred             eEEeccc
Q psy4734         331 MIYFELK  337 (367)
Q Consensus       331 ~v~~~~~  337 (367)
                      .+++.+-
T Consensus       155 ~i~~~~l  161 (162)
T PF13177_consen  155 VIRFRPL  161 (162)
T ss_dssp             EEEE---
T ss_pred             EEecCCC
Confidence            9999763

...

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.38  E-value=0.00014  Score=75.88  Aligned_cols=141  Identities=21%  Similarity=0.229  Sum_probs=79.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc---cccccceecccccccccch--HHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT---MGQLYGEFDSASHEWRDGI--LAKT  256 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t---~~~l~G~~d~~~~~W~dGi--l~~~  256 (367)
                      .|.++|.|++|+||||+.+.+++++.-............+... .-++..+.   ..+++ .+|..+   ..|+  +-.+
T Consensus        38 pHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~-C~sC~~I~aG~hpDvi-EIdAas---~~gVDdIReL  112 (700)
T PRK12323         38 HHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQ-CRACTEIDAGRFVDYI-EMDAAS---NRGVDEMAQL  112 (700)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcc-cHHHHHHHcCCCCcce-Eecccc---cCCHHHHHHH
Confidence            4778999999999999999999998531100000000000000 00000000   01111 123221   1122  1112


Q ss_pred             HHHHhc-CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEec
Q psy4734         257 FREMAV-STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE  335 (367)
Q Consensus       257 ~r~~~~-~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~  335 (367)
                      +..... ......|-+|+| ++|..-.+..|.+|.   +  |   |  .-+.++.||+=|++.....|...|||-.+.+.
T Consensus       113 ie~~~~~P~~gr~KViIID-Eah~Ls~~AaNALLK---T--L---E--EPP~~v~FILaTtep~kLlpTIrSRCq~f~f~  181 (700)
T PRK12323        113 LDKAVYAPTAGRFKVYMID-EVHMLTNHAFNAMLK---T--L---E--EPPEHVKFILATTDPQKIPVTVLSRCLQFNLK  181 (700)
T ss_pred             HHHHHhchhcCCceEEEEE-ChHhcCHHHHHHHHH---h--h---c--cCCCCceEEEEeCChHhhhhHHHHHHHhcccC
Confidence            222211 123457899999 677766677777652   1  1   1  13568899999999999999999999999998


Q ss_pred             ccC
Q psy4734         336 LKC  338 (367)
Q Consensus       336 ~~~  338 (367)
                      +-.
T Consensus       182 ~ls  184 (700)
T PRK12323        182 QMP  184 (700)
T ss_pred             CCC
Confidence            654

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.37  E-value=0.0003  Score=76.13  Aligned_cols=150  Identities=20%  Similarity=0.206  Sum_probs=81.5

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhcccccccee-EEEEeCC---CCCccccccceecccccccccchHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKT-GYKIINP---KSITMGQLYGEFDSASHEWRDGILAKT  256 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v-~~~~inp---ka~t~~~l~G~~d~~~~~W~dGil~~~  256 (367)
                      ..|.++|.||+|+||||+.++|++.|.-...... .. .... ....|+.   ....+-+    +|..++.=.|-+- .+
T Consensus        36 i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~-~p-Cg~C~sC~~~~~g~~~~~dv~e----idaas~~~Vd~iR-~l  108 (824)
T PRK07764         36 INHAYLFSGPRGCGKTSSARILARSLNCVEGPTS-TP-CGECDSCVALAPGGPGSLDVTE----IDAASHGGVDDAR-EL  108 (824)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCC-CC-CcccHHHHHHHcCCCCCCcEEE----ecccccCCHHHHH-HH
Confidence            3577899999999999999999998852110000 00 0000 0000110   1111111    1111110011111 11


Q ss_pred             HHHHh-cCCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEec
Q psy4734         257 FREMA-VSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE  335 (367)
Q Consensus       257 ~r~~~-~~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~  335 (367)
                      ...+. .......|.+|+| ++|..-.+..|.+|.   +|-       ..++++.|||-+++...+-|+..|||-++.|.
T Consensus       109 ~~~~~~~p~~~~~KV~IID-Ead~lt~~a~NaLLK---~LE-------EpP~~~~fIl~tt~~~kLl~TIrSRc~~v~F~  177 (824)
T PRK07764        109 RERAFFAPAESRYKIFIID-EAHMVTPQGFNALLK---IVE-------EPPEHLKFIFATTEPDKVIGTIRSRTHHYPFR  177 (824)
T ss_pred             HHHHHhchhcCCceEEEEe-chhhcCHHHHHHHHH---HHh-------CCCCCeEEEEEeCChhhhhHHHHhheeEEEee
Confidence            11111 1223567899999 666666677776541   110       15678889999988888888899999999998


Q ss_pred             ccCCchHHHHHHHHHH
Q psy4734         336 LKCISWTTFFLSYQNE  351 (367)
Q Consensus       336 ~~~~~~~~~~~swl~~  351 (367)
                      .-.   ..-+..||..
T Consensus       178 ~l~---~~~l~~~L~~  190 (824)
T PRK07764        178 LVP---PEVMRGYLER  190 (824)
T ss_pred             CCC---HHHHHHHHHH
Confidence            653   1344556654

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.29  E-value=0.00047  Score=68.74  Aligned_cols=142  Identities=13%  Similarity=0.153  Sum_probs=82.3

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhh------h---ccccccceeEEEEeCCCCCccccccceecccccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAK------K---SATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDG  251 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~------~---~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dG  251 (367)
                      ..|+++|.||+|+|||++.+.+++++.--...      .   .....+....++.+.|...+             -..|-
T Consensus        35 l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hpD~~~i~~~~~~-------------i~i~~  101 (394)
T PRK07940         35 MTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHPDVRVVAPEGLS-------------IGVDE  101 (394)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEecccccc-------------CCHHH
Confidence            35789999999999999999999887421100      0   00000111122223332110             00111


Q ss_pred             hHHHHHHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee
Q psy4734         252 ILAKTFREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG  330 (367)
Q Consensus       252 il~~~~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg  330 (367)
                       +-.+++.+... .....+.+++| ++|..-.+..|++|.-     |   |  ..+++..+|+-+++.....|+.+|||-
T Consensus       102 -iR~l~~~~~~~p~~~~~kViiID-ead~m~~~aanaLLk~-----L---E--ep~~~~~fIL~a~~~~~llpTIrSRc~  169 (394)
T PRK07940        102 -VRELVTIAARRPSTGRWRIVVIE-DADRLTERAANALLKA-----V---E--EPPPRTVWLLCAPSPEDVLPTIRSRCR  169 (394)
T ss_pred             -HHHHHHHHHhCcccCCcEEEEEe-chhhcCHHHHHHHHHH-----h---h--cCCCCCeEEEEECChHHChHHHHhhCe
Confidence             22333333322 23467889998 6665555555655421     1   1  135577789999999999999999999


Q ss_pred             eEEecccCCchHHHHHHHHH
Q psy4734         331 MIYFELKCISWTTFFLSYQN  350 (367)
Q Consensus       331 ~v~~~~~~~~~~~~~~swl~  350 (367)
                      .+++.+-.-   .-+..|+.
T Consensus       170 ~i~f~~~~~---~~i~~~L~  186 (394)
T PRK07940        170 HVALRTPSV---EAVAEVLV  186 (394)
T ss_pred             EEECCCCCH---HHHHHHHH
Confidence            999987642   34566665

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.27  E-value=0.00019  Score=72.68  Aligned_cols=146  Identities=19%  Similarity=0.191  Sum_probs=81.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc---cccccceecccccccccch--HHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT---MGQLYGEFDSASHEWRDGI--LAKTF  257 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t---~~~l~G~~d~~~~~W~dGi--l~~~~  257 (367)
                      |.++|.||+|+||||+.+.++++++--....     ..+.... -.+..+.   ..+ +..+|+.+.   .|+  +-.+.
T Consensus        41 ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~-----~~pCg~C-~sC~~i~~g~~~d-viEIdaas~---~gVd~IReL~  110 (484)
T PRK14956         41 HAYIFFGPRGVGKTTIARILAKRLNCENPIG-----NEPCNEC-TSCLEITKGISSD-VLEIDAASN---RGIENIRELR  110 (484)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCcccccC-----ccccCCC-cHHHHHHccCCcc-ceeechhhc---ccHHHHHHHH
Confidence            5579999999999999999999875321000     0000000 0000000   001 122343221   122  11111


Q ss_pred             HHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecc
Q psy4734         258 REMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFEL  336 (367)
Q Consensus       258 r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~  336 (367)
                      ..+... .....+-+|+| .+|..-.+..|.+|.        +=|  .-+.++.||+-+++.....|+.+|||-.+++.+
T Consensus       111 e~l~~~p~~g~~KV~IID-Eah~Ls~~A~NALLK--------tLE--EPp~~viFILaTte~~kI~~TI~SRCq~~~f~~  179 (484)
T PRK14956        111 DNVKFAPMGGKYKVYIID-EVHMLTDQSFNALLK--------TLE--EPPAHIVFILATTEFHKIPETILSRCQDFIFKK  179 (484)
T ss_pred             HHHHhhhhcCCCEEEEEe-chhhcCHHHHHHHHH--------Hhh--cCCCceEEEeecCChhhccHHHHhhhheeeecC
Confidence            111111 22356889999 666666666666531        112  235688899999999999999999999999876


Q ss_pred             cCCchHHHHHHHHHHh
Q psy4734         337 KCISWTTFFLSYQNEL  352 (367)
Q Consensus       337 ~~~~~~~~~~swl~~~  352 (367)
                      -..   .-+..|+..+
T Consensus       180 ls~---~~i~~~L~~i  192 (484)
T PRK14956        180 VPL---SVLQDYSEKL  192 (484)
T ss_pred             CCH---HHHHHHHHHH
Confidence            642   3445555544

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.26  E-value=0.00023  Score=74.51  Aligned_cols=152  Identities=19%  Similarity=0.232  Sum_probs=82.1

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccc--cceecccccccccch--HHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQL--YGEFDSASHEWRDGI--LAKTF  257 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l--~G~~d~~~~~W~dGi--l~~~~  257 (367)
                      .|.++|.||+|+||||+.+.++++++-............+... .-++..+..+..  |=.+|..+   ..|+  +-.++
T Consensus        38 ~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~-C~~C~~i~~g~h~D~~eldaas---~~~Vd~iReli  113 (618)
T PRK14951         38 HHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGV-CQACRDIDSGRFVDYTELDAAS---NRGVDEVQQLL  113 (618)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCc-cHHHHHHHcCCCCceeecCccc---ccCHHHHHHHH
Confidence            4678999999999999999999998632110000000000000 000000000000  00122221   1222  11222


Q ss_pred             HHHhc-CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecc
Q psy4734         258 REMAV-STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFEL  336 (367)
Q Consensus       258 r~~~~-~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~  336 (367)
                      ..+.. ......+.+|+| ++|..-.+..|.+|   |.     -|  ..|+++.|||-|++....-|...|||-.+.+.+
T Consensus       114 ~~~~~~p~~g~~KV~IID-Evh~Ls~~a~NaLL---Kt-----LE--EPP~~~~fIL~Ttd~~kil~TIlSRc~~~~f~~  182 (618)
T PRK14951        114 EQAVYKPVQGRFKVFMID-EVHMLTNTAFNAML---KT-----LE--EPPEYLKFVLATTDPQKVPVTVLSRCLQFNLRP  182 (618)
T ss_pred             HHHHhCcccCCceEEEEE-ChhhCCHHHHHHHH---Hh-----cc--cCCCCeEEEEEECCchhhhHHHHHhceeeecCC
Confidence            22211 123457899999 77766666777655   11     11  246788999999998888888899999999976


Q ss_pred             cCCchHHHHHHHHHH
Q psy4734         337 KCISWTTFFLSYQNE  351 (367)
Q Consensus       337 ~~~~~~~~~~swl~~  351 (367)
                      -.-   .-+..||..
T Consensus       183 Ls~---eei~~~L~~  194 (618)
T PRK14951        183 MAP---ETVLEHLTQ  194 (618)
T ss_pred             CCH---HHHHHHHHH
Confidence            542   334445543

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.23  E-value=0.00083  Score=68.59  Aligned_cols=131  Identities=15%  Similarity=0.135  Sum_probs=76.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhc----------cccccceeEEEEeCCCCCccccccceecccccccccc
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS----------ATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDG  251 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~----------~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dG  251 (367)
                      .|.++|.||+|+||||+.++++++++-..+...          .-..+....+..+|+.+              +.=.|-
T Consensus        35 ~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas--------------~~~vdd  100 (491)
T PRK14964         35 PQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAAS--------------NTSVDD  100 (491)
T ss_pred             CceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEeccc--------------CCCHHH
Confidence            467999999999999999999998853211100          00001122223333322              110011


Q ss_pred             hHHHHHHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee
Q psy4734         252 ILAKTFREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG  330 (367)
Q Consensus       252 il~~~~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg  330 (367)
                       +-.++..+... -....|.+|+|. +|..-.+..|.+|.        .-|  ..|+++.|||-+++.....+...|||-
T Consensus       101 -IR~Iie~~~~~P~~~~~KVvIIDE-ah~Ls~~A~NaLLK--------~LE--ePp~~v~fIlatte~~Kl~~tI~SRc~  168 (491)
T PRK14964        101 -IKVILENSCYLPISSKFKVYIIDE-VHMLSNSAFNALLK--------TLE--EPAPHVKFILATTEVKKIPVTIISRCQ  168 (491)
T ss_pred             -HHHHHHHHHhccccCCceEEEEeC-hHhCCHHHHHHHHH--------HHh--CCCCCeEEEEEeCChHHHHHHHHHhhe
Confidence             11122222111 224679999994 55554555555431        111  246789999999999999898899999


Q ss_pred             eEEecccC
Q psy4734         331 MIYFELKC  338 (367)
Q Consensus       331 ~v~~~~~~  338 (367)
                      .+.+.+-.
T Consensus       169 ~~~f~~l~  176 (491)
T PRK14964        169 RFDLQKIP  176 (491)
T ss_pred             eeeccccc
Confidence            99987554

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

Probab=97.22  E-value=0.00034  Score=71.48  Aligned_cols=136  Identities=24%  Similarity=0.276  Sum_probs=89.5

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccc--eecccccccccchHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG--EFDSASHEWRDGILAKTFR  258 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G--~~d~~~~~W~dGil~~~~r  258 (367)
                      ..|+-+|.||-|+||||+.++++++++=....     ...+.. ...++++++.+...-  .+|..++.   ||  .-+|
T Consensus        37 i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~-----~~ePC~-~C~~Ck~I~~g~~~DviEiDaASn~---gV--ddiR  105 (515)
T COG2812          37 IAHAYLFSGPRGVGKTTIARILAKALNCENGP-----TAEPCG-KCISCKEINEGSLIDVIEIDAASNT---GV--DDIR  105 (515)
T ss_pred             chhhhhhcCCCCcCchhHHHHHHHHhcCCCCC-----CCCcch-hhhhhHhhhcCCcccchhhhhhhcc---Ch--HHHH
Confidence            45889999999999999999999999644211     111111 123445554331111  13444443   22  2234


Q ss_pred             HHhc---C--CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEE
Q psy4734         259 EMAV---S--TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIY  333 (367)
Q Consensus       259 ~~~~---~--~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~  333 (367)
                      +...   .  .....|-+++| .++..-....|++|-   +|-       .-|+++.|||-|++....-|-.+|||--..
T Consensus       106 ~i~e~v~y~P~~~ryKVyiID-EvHMLS~~afNALLK---TLE-------EPP~hV~FIlATTe~~Kip~TIlSRcq~f~  174 (515)
T COG2812         106 EIIEKVNYAPSEGRYKVYIID-EVHMLSKQAFNALLK---TLE-------EPPSHVKFILATTEPQKIPNTILSRCQRFD  174 (515)
T ss_pred             HHHHHhccCCccccceEEEEe-cHHhhhHHHHHHHhc---ccc-------cCccCeEEEEecCCcCcCchhhhhcccccc
Confidence            4332   1  23456889999 888888888998862   221       468899999999999999888899999887


Q ss_pred             ecccC
Q psy4734         334 FELKC  338 (367)
Q Consensus       334 ~~~~~  338 (367)
                      +..-+
T Consensus       175 fkri~  179 (515)
T COG2812         175 FKRLD  179 (515)
T ss_pred             ccCCC
Confidence            76433

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.20  E-value=0.0019  Score=65.98  Aligned_cols=147  Identities=25%  Similarity=0.253  Sum_probs=73.3

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcccc--ccceecccccccccch--HHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQ--LYGEFDSASHEWRDGI--LAKTF  257 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~--l~G~~d~~~~~W~dGi--l~~~~  257 (367)
                      .|+++|.||+|+||||+.+.+++++.......     ..+.... -++..+..+.  -+-.+|...   ..|+  +-.+.
T Consensus        36 ~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~-----~~pc~~c-~~c~~i~~g~~~dv~el~aa~---~~gid~iR~i~  106 (472)
T PRK14962         36 SHAYIFAGPRGTGKTTVARILAKSLNCENRKG-----VEPCNEC-RACRSIDEGTFMDVIELDAAS---NRGIDEIRKIR  106 (472)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhccccCCC-----CCCCccc-HHHHHHhcCCCCccEEEeCcc---cCCHHHHHHHH
Confidence            35678999999999999999998875321100     0000000 0111111111  111223321   1121  11111


Q ss_pred             HHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecc
Q psy4734         258 REMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFEL  336 (367)
Q Consensus       258 r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~  336 (367)
                      ..+... ....++-+++| .+|..--+..+.+|.     ++   |  ..++++.+|+-+++.....|+..|||.++.+.+
T Consensus       107 ~~~~~~p~~~~~kVvIID-E~h~Lt~~a~~~LLk-----~L---E--~p~~~vv~Ilattn~~kl~~~L~SR~~vv~f~~  175 (472)
T PRK14962        107 DAVGYRPMEGKYKVYIID-EVHMLTKEAFNALLK-----TL---E--EPPSHVVFVLATTNLEKVPPTIISRCQVIEFRN  175 (472)
T ss_pred             HHHhhChhcCCeEEEEEE-ChHHhHHHHHHHHHH-----HH---H--hCCCcEEEEEEeCChHhhhHHHhcCcEEEEECC
Confidence            111111 22356788899 344332233333321     01   1  124456677777777788899999999999976


Q ss_pred             cCCchHHHHHHHHHH
Q psy4734         337 KCISWTTFFLSYQNE  351 (367)
Q Consensus       337 ~~~~~~~~~~swl~~  351 (367)
                      -.-   .-+..|+..
T Consensus       176 l~~---~el~~~L~~  187 (472)
T PRK14962        176 ISD---ELIIKRLQE  187 (472)
T ss_pred             ccH---HHHHHHHHH
Confidence            542   224455544

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

Probab=97.19  E-value=0.0012  Score=54.51  Aligned_cols=26  Identities=31%  Similarity=0.395  Sum_probs=21.9

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ...+++.||+|+|||++.+.++..+.
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            45688899999999999988877664

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.18  E-value=0.00059  Score=70.07  Aligned_cols=141  Identities=18%  Similarity=0.164  Sum_probs=74.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC---ccccccceecccccccccchHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI---TMGQLYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~---t~~~l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      |.++|.||+|+||||+.++++++++-....... ....+... .-++..+   ...++ -.+|..++.=.|- +-.++..
T Consensus        44 ~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~-~~~~~C~~-C~~C~~i~~~~h~Dv-~eidaas~~~vd~-Ir~iie~  119 (507)
T PRK06645         44 GGYLLTGIRGVGKTTSARIIAKAVNCSALITEN-TTIKTCEQ-CTNCISFNNHNHPDI-IEIDAASKTSVDD-IRRIIES  119 (507)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhcCccccccC-cCcCCCCC-ChHHHHHhcCCCCcE-EEeeccCCCCHHH-HHHHHHH
Confidence            678999999999999999999988632110000 00000000 0000000   00011 1223322111111 1222222


Q ss_pred             HhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         260 MAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       260 ~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                      +... -....+-+|+|. ++..--+.+|.++.-     |   |  ..++++.|||-+++.....|+..|||..+.+.+-.
T Consensus       120 a~~~P~~~~~KVvIIDE-a~~Ls~~a~naLLk~-----L---E--epp~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls  188 (507)
T PRK06645        120 AEYKPLQGKHKIFIIDE-VHMLSKGAFNALLKT-----L---E--EPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLS  188 (507)
T ss_pred             HHhccccCCcEEEEEEC-hhhcCHHHHHHHHHH-----H---h--hcCCCEEEEEEeCChHHhhHHHHhcceEEEccCCC
Confidence            2221 224578899993 444444455554311     1   1  24678889999999999988889999999887543

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

Probab=97.13  E-value=0.0016  Score=62.43  Aligned_cols=130  Identities=22%  Similarity=0.231  Sum_probs=81.5

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhcc----------ccccceeEEEEeCCCCCccccccceeccccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSA----------TMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRD  250 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~----------~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~d  250 (367)
                      ..|.++|.||+|+|||++...|++.+.-.......          ...+..-.++.+||.......              
T Consensus        23 ~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~--------------   88 (325)
T COG0470          23 LPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKID--------------   88 (325)
T ss_pred             CCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCc--------------
Confidence            44579999999999999999999887522211000          000011233445555332111              


Q ss_pred             chHHHHHHHHhcC---C--CCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcch
Q psy4734         251 GILAKTFREMAVS---T--TPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPAT  325 (367)
Q Consensus       251 Gil~~~~r~~~~~---~--~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPat  325 (367)
                       +....+|+....   .  ....+-|++| ++|..-.+.-|.++   |+       ...-+.+..||+=+.+....-|..
T Consensus        89 -i~~~~vr~~~~~~~~~~~~~~~kviiid-ead~mt~~A~nall---k~-------lEep~~~~~~il~~n~~~~il~tI  156 (325)
T COG0470          89 -IIVEQVRELAEFLSESPLEGGYKVVIID-EADKLTEDAANALL---KT-------LEEPPKNTRFILITNDPSKILPTI  156 (325)
T ss_pred             -chHHHHHHHHHHhccCCCCCCceEEEeC-cHHHHhHHHHHHHH---HH-------hccCCCCeEEEEEcCChhhccchh
Confidence             444555655432   1  2567899999 77776666666653   11       112355777888888899999988


Q ss_pred             hhceeeEEecc
Q psy4734         326 VSRVGMIYFEL  336 (367)
Q Consensus       326 vsRcg~v~~~~  336 (367)
                      .|||.++++.+
T Consensus       157 ~SRc~~i~f~~  167 (325)
T COG0470         157 RSRCQRIRFKP  167 (325)
T ss_pred             hhcceeeecCC
Confidence            89999999987

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.11  E-value=0.00064  Score=71.54  Aligned_cols=136  Identities=20%  Similarity=0.211  Sum_probs=76.9

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccc---cccceecccccccccch--HHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMG---QLYGEFDSASHEWRDGI--LAKT  256 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~---~l~G~~d~~~~~W~dGi--l~~~  256 (367)
                      .|.++|.||+|+||||+.+.+++++.--.....     .+.... -.++.+..+   +++ .+|..+   ..|+  +-.+
T Consensus        38 ~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~-----~pCg~C-~~C~~i~~g~~~D~i-eidaas---~~~VddiR~l  107 (647)
T PRK07994         38 HHAYLFSGTRGVGKTTIARLLAKGLNCETGITA-----TPCGEC-DNCREIEQGRFVDLI-EIDAAS---RTKVEDTREL  107 (647)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhhhhccCCCC-----CCCCCC-HHHHHHHcCCCCCce-eecccc---cCCHHHHHHH
Confidence            456789999999999999999998864211000     000000 000000000   110 122211   1222  1112


Q ss_pred             HHHHhc-CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEec
Q psy4734         257 FREMAV-STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE  335 (367)
Q Consensus       257 ~r~~~~-~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~  335 (367)
                      +..+.. ......+-+|+| .+|..-.+..|.+|-   +|     |  .-|++++||+-|++.....|...|||-.+++.
T Consensus       108 i~~~~~~p~~g~~KV~IID-Eah~Ls~~a~NALLK---tL-----E--EPp~~v~FIL~Tt~~~kLl~TI~SRC~~~~f~  176 (647)
T PRK07994        108 LDNVQYAPARGRFKVYLID-EVHMLSRHSFNALLK---TL-----E--EPPEHVKFLLATTDPQKLPVTILSRCLQFHLK  176 (647)
T ss_pred             HHHHHhhhhcCCCEEEEEe-chHhCCHHHHHHHHH---HH-----H--cCCCCeEEEEecCCccccchHHHhhheEeeCC
Confidence            222111 123467899999 666666666666541   11     1  24678899999999999988889999999998


Q ss_pred             ccC
Q psy4734         336 LKC  338 (367)
Q Consensus       336 ~~~  338 (367)
                      +-.
T Consensus       177 ~Ls  179 (647)
T PRK07994        177 ALD  179 (647)
T ss_pred             CCC
Confidence            764

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.06  E-value=0.0042  Score=60.07  Aligned_cols=60  Identities=18%  Similarity=0.262  Sum_probs=37.3

Q ss_pred             CCceEEEEcCC--CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         266 PDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       266 ~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                      .+.+-||+|-.  ++....+.|...+++             .+++.++|+=+++....-|+..|||..+.+.+-.
T Consensus       124 ~~~~vlilDe~~~l~~~~~~~L~~~le~-------------~~~~~~~Il~~~~~~~~~~~L~sr~~~v~~~~~~  185 (337)
T PRK12402        124 ADYKTILLDNAEALREDAQQALRRIMEQ-------------YSRTCRFIIATRQPSKLIPPIRSRCLPLFFRAPT  185 (337)
T ss_pred             CCCcEEEEeCcccCCHHHHHHHHHHHHh-------------ccCCCeEEEEeCChhhCchhhcCCceEEEecCCC
Confidence            34678999942  333344445544432             1344567776655556667788999999887654

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.04  E-value=0.0024  Score=61.14  Aligned_cols=119  Identities=18%  Similarity=0.260  Sum_probs=69.1

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS  263 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~  263 (367)
                      .+++.||+|+|||++.+.++..++.            .  ...++.....               .-+.+...++..   
T Consensus        32 ~~ll~Gp~G~GKT~la~~ia~~~~~------------~--~~~~~~~~~~---------------~~~~l~~~l~~~---   79 (305)
T TIGR00635        32 HLLLYGPPGLGKTTLAHIIANEMGV------------N--LKITSGPALE---------------KPGDLAAILTNL---   79 (305)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC------------C--EEEeccchhc---------------CchhHHHHHHhc---
Confidence            3788999999999999988765421            1  1111111110               012233334332   


Q ss_pred             CCCCceEEEEcC--CCChHhhhhhhhccCCCCce-eeccc---c--eeecCCCCeEEEecCCCCccCcchhhceeeE-Ee
Q psy4734         264 TTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKL-CLING---E--IIKMSNTMNLIFECENLEFASPATVSRVGMI-YF  334 (367)
Q Consensus       264 ~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l-~L~~g---e--~i~l~~~~~~ifE~~~l~~asPatvsRcg~v-~~  334 (367)
                        .....+++|.  .++..-.|.|.+++++.+.. .+.+|   .  +..++ .+.++.-|+.....+|+..|||+++ .+
T Consensus        80 --~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~-~~~li~~t~~~~~l~~~l~sR~~~~~~l  156 (305)
T TIGR00635        80 --EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLP-PFTLVGATTRAGMLTSPLRDRFGIILRL  156 (305)
T ss_pred             --ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCC-CeEEEEecCCccccCHHHHhhcceEEEe
Confidence              2346888882  24455566777777665433 23333   1  23333 3667777777778899999999875 56


Q ss_pred             ccc
Q psy4734         335 ELK  337 (367)
Q Consensus       335 ~~~  337 (367)
                      ++-
T Consensus       157 ~~l  159 (305)
T TIGR00635       157 EFY  159 (305)
T ss_pred             CCC
Confidence            654

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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.02  E-value=0.0016  Score=63.40  Aligned_cols=141  Identities=19%  Similarity=0.181  Sum_probs=85.7

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhc----------cccccceeEEEEeCCCCCccccccceeccccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS----------ATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRD  250 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~----------~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~d  250 (367)
                      ..|.++|.||+|.||+++.+.+++++.-......          ....+..-.++.+.|..                -..
T Consensus        21 ~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~----------------~~~   84 (328)
T PRK05707         21 HPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEE----------------ADK   84 (328)
T ss_pred             cceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccC----------------CCC
Confidence            4577899999999999999999998842110000          00001111222233310                001


Q ss_pred             chHHHHHHHHh----c-CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcch
Q psy4734         251 GILAKTFREMA----V-STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPAT  325 (367)
Q Consensus       251 Gil~~~~r~~~----~-~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPat  325 (367)
                      .+-..-+|+..    . ....++|.+|+| +.|..-.+.-|++|-   +|     |  ..|++..||+-+++....-|..
T Consensus        85 ~i~id~iR~l~~~~~~~~~~~~~kv~iI~-~a~~m~~~aaNaLLK---~L-----E--EPp~~~~fiL~t~~~~~ll~TI  153 (328)
T PRK05707         85 TIKVDQVRELVSFVVQTAQLGGRKVVLIE-PAEAMNRNAANALLK---SL-----E--EPSGDTVLLLISHQPSRLLPTI  153 (328)
T ss_pred             CCCHHHHHHHHHHHhhccccCCCeEEEEC-ChhhCCHHHHHHHHH---HH-----h--CCCCCeEEEEEECChhhCcHHH
Confidence            12122333332    2 223568889997 677766777777652   11     1  1356788999999999999999


Q ss_pred             hhceeeEEecccCCchHHHHHHHHHH
Q psy4734         326 VSRVGMIYFELKCISWTTFFLSYQNE  351 (367)
Q Consensus       326 vsRcg~v~~~~~~~~~~~~~~swl~~  351 (367)
                      .|||-.+.+.+-.-   .-+..||..
T Consensus       154 ~SRc~~~~~~~~~~---~~~~~~L~~  176 (328)
T PRK05707        154 KSRCQQQACPLPSN---EESLQWLQQ  176 (328)
T ss_pred             HhhceeeeCCCcCH---HHHHHHHHH
Confidence            99999999986542   456677765

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.01  E-value=0.0016  Score=67.37  Aligned_cols=136  Identities=18%  Similarity=0.191  Sum_probs=73.3

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc---cccccceecccccccccch--HHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT---MGQLYGEFDSASHEWRDGI--LAKT  256 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t---~~~l~G~~d~~~~~W~dGi--l~~~  256 (367)
                      .|.++|.||+|+||||+.+.+++.+.-......     .+... .-....+.   ..+++. +|..+.   -|+  +..+
T Consensus        38 ~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~-----~pCg~-C~sC~~i~~~~~~dlie-idaas~---~gvd~ir~i  107 (546)
T PRK14957         38 HHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTA-----EPCNK-CENCVAINNNSFIDLIE-IDAASR---TGVEETKEI  107 (546)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC-----CCCcc-cHHHHHHhcCCCCceEE-eecccc---cCHHHHHHH
Confidence            456789999999999999999998853111000     00000 00000000   011110 111110   111  1122


Q ss_pred             HHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEec
Q psy4734         257 FREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE  335 (367)
Q Consensus       257 ~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~  335 (367)
                      +..+... ....++-+|+| ++|..-.+..|.+|.     +|   |  ..|+++.|||-|++....-|+..|||-++.+.
T Consensus       108 i~~~~~~p~~g~~kViIID-Ea~~ls~~a~naLLK-----~L---E--epp~~v~fIL~Ttd~~kil~tI~SRc~~~~f~  176 (546)
T PRK14957        108 LDNIQYMPSQGRYKVYLID-EVHMLSKQSFNALLK-----TL---E--EPPEYVKFILATTDYHKIPVTILSRCIQLHLK  176 (546)
T ss_pred             HHHHHhhhhcCCcEEEEEe-chhhccHHHHHHHHH-----HH---h--cCCCCceEEEEECChhhhhhhHHHheeeEEeC
Confidence            2222211 23467899999 345444445554431     01   1  13678889999999888888889999999998


Q ss_pred             ccC
Q psy4734         336 LKC  338 (367)
Q Consensus       336 ~~~  338 (367)
                      +-.
T Consensus       177 ~Ls  179 (546)
T PRK14957        177 HIS  179 (546)
T ss_pred             CCC
Confidence            764

>PLN03025 replication factor C subunit; Provisional

Probab=96.99  E-value=0.0022  Score=62.17  Aligned_cols=130  Identities=19%  Similarity=0.224  Sum_probs=70.9

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS  263 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~  263 (367)
                      .++|.||+|+|||++++.+++.+..-.         ....+..+|+..     ..|          -.++-..++..+..
T Consensus        36 ~lll~Gp~G~GKTtla~~la~~l~~~~---------~~~~~~eln~sd-----~~~----------~~~vr~~i~~~~~~   91 (319)
T PLN03025         36 NLILSGPPGTGKTTSILALAHELLGPN---------YKEAVLELNASD-----DRG----------IDVVRNKIKMFAQK   91 (319)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhccc---------Cccceeeecccc-----ccc----------HHHHHHHHHHHHhc
Confidence            378899999999999999988763110         000111233211     011          01222233332221


Q ss_pred             ----CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccCC
Q psy4734         264 ----TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCI  339 (367)
Q Consensus       264 ----~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~~  339 (367)
                          .....+.+++| ++|..-...-+.++   +.+     |  ..+++.+|+|-+.......|+..|||-++.+.+-.-
T Consensus        92 ~~~~~~~~~kviiiD-E~d~lt~~aq~aL~---~~l-----E--~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~  160 (319)
T PLN03025         92 KVTLPPGRHKIVILD-EADSMTSGAQQALR---RTM-----E--IYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSD  160 (319)
T ss_pred             cccCCCCCeEEEEEe-chhhcCHHHHHHHH---HHH-----h--cccCCceEEEEeCCccccchhHHHhhhcccCCCCCH
Confidence                12357899999 55443222222221   001     1  124567788877777788899999999998876531


Q ss_pred             chHHHHHHHHHH
Q psy4734         340 SWTTFFLSYQNE  351 (367)
Q Consensus       340 ~~~~~~~swl~~  351 (367)
                         .-+..|+..
T Consensus       161 ---~~l~~~L~~  169 (319)
T PLN03025        161 ---QEILGRLMK  169 (319)
T ss_pred             ---HHHHHHHHH
Confidence               333445544

>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=96.96  E-value=0.003  Score=57.87  Aligned_cols=119  Identities=21%  Similarity=0.317  Sum_probs=69.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      ..++|.||||+||||+.++++..++              +.++..+..++..               -|=+..++...  
T Consensus        51 ~h~lf~GPPG~GKTTLA~IIA~e~~--------------~~~~~~sg~~i~k---------------~~dl~~il~~l--   99 (233)
T PF05496_consen   51 DHMLFYGPPGLGKTTLARIIANELG--------------VNFKITSGPAIEK---------------AGDLAAILTNL--   99 (233)
T ss_dssp             -EEEEESSTTSSHHHHHHHHHHHCT----------------EEEEECCC--S---------------CHHHHHHHHT---
T ss_pred             ceEEEECCCccchhHHHHHHHhccC--------------CCeEeccchhhhh---------------HHHHHHHHHhc--
Confidence            4578999999999999999887653              2222232222210               01122333322  


Q ss_pred             CCCCCceEEEEc--CCCChHhhhhhhhccCCCCc-eeeccc---ceeecC-CCCeEEEecCCCCccCcchhhceeeEE-e
Q psy4734         263 STTPDRKWIMFD--GPIDAVWIENMNTVLDDNKK-LCLING---EIIKMS-NTMNLIFECENLEFASPATVSRVGMIY-F  334 (367)
Q Consensus       263 ~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~-l~L~~g---e~i~l~-~~~~~ifE~~~l~~asPatvsRcg~v~-~  334 (367)
                         .....++.|  -.+...--|.|-+.+.|... +.+..|   -.++++ +++.+|=-|+.....|+..-+|.|++. +
T Consensus       100 ---~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~~~l  176 (233)
T PF05496_consen  100 ---KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIVLRL  176 (233)
T ss_dssp             ----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEEEE-
T ss_pred             ---CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcceecch
Confidence               234677778  23455666777777776554 344444   234443 568999999999999999999999984 4


Q ss_pred             c
Q psy4734         335 E  335 (367)
Q Consensus       335 ~  335 (367)
                      +
T Consensus       177 ~  177 (233)
T PF05496_consen  177 E  177 (233)
T ss_dssp             -
T ss_pred             h
Confidence            4

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.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=96.96  E-value=0.0015  Score=68.08  Aligned_cols=145  Identities=19%  Similarity=0.210  Sum_probs=79.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccc--cceecccccccccchHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQL--YGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l--~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      .|..+|.||+|+|||++.+.+++++.-....     ++.+..... +++.++.+..  +-.+|+.++   .|+  .-+|+
T Consensus        38 ~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~-----~~~pC~~C~-~C~~i~~g~~~dv~eidaas~---~~v--d~ir~  106 (559)
T PRK05563         38 SHAYLFSGPRGTGKTSAAKIFAKAVNCLNPP-----DGEPCNECE-ICKAITNGSLMDVIEIDAASN---NGV--DEIRD  106 (559)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCCCC-----CCCCCCccH-HHHHHhcCCCCCeEEeecccc---CCH--HHHHH
Confidence            4668899999999999999999988532210     001110000 0000100000  001233221   121  12222


Q ss_pred             Hh---c--CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEe
Q psy4734         260 MA---V--STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYF  334 (367)
Q Consensus       260 ~~---~--~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~  334 (367)
                      ..   .  ......+.+|+|. +|..-.+..|.+|.     +|   |  ..|+++.||+-+++.....|+..|||..+.+
T Consensus       107 i~~~v~~~p~~~~~kViIIDE-~~~Lt~~a~naLLK-----tL---E--epp~~~ifIlatt~~~ki~~tI~SRc~~~~f  175 (559)
T PRK05563        107 IRDKVKYAPSEAKYKVYIIDE-VHMLSTGAFNALLK-----TL---E--EPPAHVIFILATTEPHKIPATILSRCQRFDF  175 (559)
T ss_pred             HHHHHhhCcccCCeEEEEEEC-cccCCHHHHHHHHH-----Hh---c--CCCCCeEEEEEeCChhhCcHHHHhHheEEec
Confidence            21   1  1234679999994 55555556666542     11   1  1266788899888888888888999999988


Q ss_pred             cccCCchHHHHHHHHHH
Q psy4734         335 ELKCISWTTFFLSYQNE  351 (367)
Q Consensus       335 ~~~~~~~~~~~~swl~~  351 (367)
                      .+-.   ..-+..||..
T Consensus       176 ~~~~---~~ei~~~L~~  189 (559)
T PRK05563        176 KRIS---VEDIVERLKY  189 (559)
T ss_pred             CCCC---HHHHHHHHHH
Confidence            6543   2334445543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=96.95  E-value=0.0028  Score=61.58  Aligned_cols=120  Identities=17%  Similarity=0.239  Sum_probs=70.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      ..++|.||+|+|||++.+.++..++.            .+  ..++.....               ..|.+..+++..  
T Consensus        52 ~~~ll~GppG~GKT~la~~ia~~l~~------------~~--~~~~~~~~~---------------~~~~l~~~l~~l--  100 (328)
T PRK00080         52 DHVLLYGPPGLGKTTLANIIANEMGV------------NI--RITSGPALE---------------KPGDLAAILTNL--  100 (328)
T ss_pred             CcEEEECCCCccHHHHHHHHHHHhCC------------Ce--EEEeccccc---------------ChHHHHHHHHhc--
Confidence            45788999999999999988876531            11  111111010               012344444433  


Q ss_pred             CCCCCceEEEEc--CCCChHhhhhhhhccCCCCce-eecccc-----eeecCCCCeEEEecCCCCccCcchhhceee-EE
Q psy4734         263 STTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKL-CLINGE-----IIKMSNTMNLIFECENLEFASPATVSRVGM-IY  333 (367)
Q Consensus       263 ~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l-~L~~ge-----~i~l~~~~~~ifE~~~l~~asPatvsRcg~-v~  333 (367)
                         .....+++|  ..+...--|.+.+.+++.... .+.+|.     ++.++ .+.+|.-++.....+|+..||||+ +.
T Consensus       101 ---~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~-~~~li~at~~~~~l~~~L~sRf~~~~~  176 (328)
T PRK00080        101 ---EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLP-PFTLIGATTRAGLLTSPLRDRFGIVQR  176 (328)
T ss_pred             ---ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCC-CceEEeecCCcccCCHHHHHhcCeeee
Confidence               234688888  223344455666666665433 233332     22334 477888888888899999999986 45


Q ss_pred             eccc
Q psy4734         334 FELK  337 (367)
Q Consensus       334 ~~~~  337 (367)
                      +++-
T Consensus       177 l~~~  180 (328)
T PRK00080        177 LEFY  180 (328)
T ss_pred             cCCC
Confidence            6543

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.95  E-value=0.0034  Score=60.43  Aligned_cols=110  Identities=19%  Similarity=0.209  Sum_probs=64.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      +.+++.||+|+|||++.+.++..++              ..+..+|+.. .             . .+.+. ..+.+...
T Consensus        44 ~~lll~G~~G~GKT~la~~l~~~~~--------------~~~~~i~~~~-~-------------~-~~~i~-~~l~~~~~   93 (316)
T PHA02544         44 NMLLHSPSPGTGKTTVAKALCNEVG--------------AEVLFVNGSD-C-------------R-IDFVR-NRLTRFAS   93 (316)
T ss_pred             eEEEeeCcCCCCHHHHHHHHHHHhC--------------ccceEeccCc-c-------------c-HHHHH-HHHHHHHH
Confidence            4455589999999999998876541              0123345542 1             0 11111 11111111


Q ss_pred             C--CCCCceEEEEcCCCChH----hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecc
Q psy4734         263 S--TTPDRKWIMFDGPIDAV----WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFEL  336 (367)
Q Consensus       263 ~--~~~~~~wivfDG~~d~~----wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~  336 (367)
                      .  .....+-+|+|. +|..    .-+.|.+.++.             .+.++++|+-+++.....|+..|||..+.+..
T Consensus        94 ~~~~~~~~~vliiDe-~d~l~~~~~~~~L~~~le~-------------~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~  159 (316)
T PHA02544         94 TVSLTGGGKVIIIDE-FDRLGLADAQRHLRSFMEA-------------YSKNCSFIITANNKNGIIEPLRSRCRVIDFGV  159 (316)
T ss_pred             hhcccCCCeEEEEEC-cccccCHHHHHHHHHHHHh-------------cCCCceEEEEcCChhhchHHHHhhceEEEeCC
Confidence            1  113468899994 3322    33444444332             24567889988888889999999999998843

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.94  E-value=0.0011  Score=68.58  Aligned_cols=138  Identities=20%  Similarity=0.184  Sum_probs=75.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc---cccccceecccccccccchHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT---MGQLYGEFDSASHEWRDGILAKTFR  258 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t---~~~l~G~~d~~~~~W~dGil~~~~r  258 (367)
                      .|.++|.||+|+||||+.+.+++++.--....     ..+.... -.+..+.   ..+++ .+|..+....|-+ -.++.
T Consensus        38 ~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-----~~pcg~C-~~C~~i~~~~~~d~~-ei~~~~~~~vd~i-r~l~~  109 (527)
T PRK14969         38 HHAYLFTGTRGVGKTTLARILAKSLNCETGVT-----ATPCGVC-SACLEIDSGRFVDLI-EVDAASNTQVDAM-RELLD  109 (527)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-----CCCCCCC-HHHHHHhcCCCCcee-EeeccccCCHHHH-HHHHH
Confidence            46788999999999999999999885211000     0000000 0000000   01111 1222221111111 12222


Q ss_pred             HHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEeccc
Q psy4734         259 EMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       259 ~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~  337 (367)
                      .+... ....++-+|+| ++|..-.+..|.+|.-     |   |  ..|+++.||+-+++....-|...|||-.+.+.+-
T Consensus       110 ~~~~~p~~~~~kVvIID-Ead~ls~~a~naLLK~-----L---E--epp~~~~fIL~t~d~~kil~tI~SRc~~~~f~~l  178 (527)
T PRK14969        110 NAQYAPTRGRFKVYIID-EVHMLSKSAFNAMLKT-----L---E--EPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQM  178 (527)
T ss_pred             HHhhCcccCCceEEEEc-CcccCCHHHHHHHHHH-----H---h--CCCCCEEEEEEeCChhhCchhHHHHHHHHhcCCC
Confidence            22222 23456889999 4565555666655411     1   1  1357888999999988888777999999999865


Q ss_pred             C
Q psy4734         338 C  338 (367)
Q Consensus       338 ~  338 (367)
                      .
T Consensus       179 ~  179 (527)
T PRK14969        179 P  179 (527)
T ss_pred             C
Confidence            4

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.92  E-value=0.00098  Score=69.87  Aligned_cols=135  Identities=20%  Similarity=0.232  Sum_probs=72.1

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccc--eecccccccccchHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG--EFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G--~~d~~~~~W~dGil~~~~r~  259 (367)
                      .|.++|.||+|+||||+.++++++++-.....     ..+... .-+++.+..+....  .+|..++   .|+  .-+|+
T Consensus        37 ~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~-----~~pCg~-C~sC~~I~~g~hpDviEIDAAs~---~~V--ddIRe  105 (702)
T PRK14960         37 HHAYLFTGTRGVGKTTIARILAKCLNCETGVT-----STPCEV-CATCKAVNEGRFIDLIEIDAASR---TKV--EDTRE  105 (702)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCcCCC-----CCCCcc-CHHHHHHhcCCCCceEEeccccc---CCH--HHHHH
Confidence            47789999999999999999999885321100     000000 00001111110000  0122211   121  11222


Q ss_pred             Hhc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEe
Q psy4734         260 MAV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYF  334 (367)
Q Consensus       260 ~~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~  334 (367)
                      ...     ......+-+|+| .+|..-.+..|.+|.     +|   |  ..++++.||+-+++.....|..+|||..+.+
T Consensus       106 li~~~~y~P~~gk~KV~IID-EVh~LS~~A~NALLK-----tL---E--EPP~~v~FILaTtd~~kIp~TIlSRCq~feF  174 (702)
T PRK14960        106 LLDNVPYAPTQGRFKVYLID-EVHMLSTHSFNALLK-----TL---E--EPPEHVKFLFATTDPQKLPITVISRCLQFTL  174 (702)
T ss_pred             HHHHHhhhhhcCCcEEEEEe-chHhcCHHHHHHHHH-----HH---h--cCCCCcEEEEEECChHhhhHHHHHhhheeec
Confidence            211     122457899999 444433344444331     11   1  1356788999999988887777899999999


Q ss_pred             cccC
Q psy4734         335 ELKC  338 (367)
Q Consensus       335 ~~~~  338 (367)
                      .+-.
T Consensus       175 kpLs  178 (702)
T PRK14960        175 RPLA  178 (702)
T ss_pred             cCCC
Confidence            8654

>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=96.91  E-value=0.00019  Score=63.17  Aligned_cols=121  Identities=14%  Similarity=0.216  Sum_probs=76.3

Q ss_pred             hhHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecc---cc
Q psy4734         173 PHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDS---AS  245 (367)
Q Consensus       173 ~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~---~~  245 (367)
                      ..+.+.......|++.|++|+||+.+.+.+..    ...+.       .-....+|+.+++    ..+|||....   ..
T Consensus        13 ~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~----~s~r~-------~~pfi~vnc~~~~~~~~e~~LFG~~~~~~~~~   81 (168)
T PF00158_consen   13 EQAKRAASSDLPVLITGETGTGKELLARAIHN----NSPRK-------NGPFISVNCAALPEELLESELFGHEKGAFTGA   81 (168)
T ss_dssp             HHHHHHTTSTS-EEEECSTTSSHHHHHHHHHH----CSTTT-------TS-EEEEETTTS-HHHHHHHHHEBCSSSSTTT
T ss_pred             HHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHH----hhhcc-------cCCeEEEehhhhhcchhhhhhhcccccccccc
Confidence            34556666778899999999999999777654    22111       1134568888886    4578997532   12


Q ss_pred             cccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecC
Q psy4734         246 HEWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECE  316 (367)
Q Consensus       246 ~~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~  316 (367)
                      ...+.|.+..+=          .--+++|  +.+.+..=..|-.+|++.....+.+.+.+  +-++|+|+-|+
T Consensus        82 ~~~~~G~l~~A~----------~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~--~~~~RiI~st~  142 (168)
T PF00158_consen   82 RSDKKGLLEQAN----------GGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPV--PVDVRIIASTS  142 (168)
T ss_dssp             SSEBEHHHHHTT----------TSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEE--E--EEEEEEES
T ss_pred             ccccCCceeecc----------ceEEeecchhhhHHHHHHHHHHHHhhchhccccccccc--cccceEEeecC
Confidence            334556653322          2467888  45677777888888888877777655544  45899998764

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 ....

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.90  E-value=0.0011  Score=62.35  Aligned_cols=26  Identities=23%  Similarity=0.356  Sum_probs=22.4

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      .++|.||||+|||++.+.+++.+..+
T Consensus        44 ~vll~GppGtGKTtlA~~ia~~l~~~   69 (261)
T TIGR02881        44 HMIFKGNPGTGKTTVARILGKLFKEM   69 (261)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            46789999999999999999887544

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.

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=96.88  E-value=0.0075  Score=62.32  Aligned_cols=144  Identities=19%  Similarity=0.202  Sum_probs=78.6

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC---ccccccceecccccccccchHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI---TMGQLYGEFDSASHEWRDGILAKTFR  258 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~---t~~~l~G~~d~~~~~W~dGil~~~~r  258 (367)
                      .|..+|.||+|+|||++.+.+++++.--....     ..+... .-++..+   ...+++ .+|..+.   -|+  .-+|
T Consensus        36 ~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~-----~~pC~~-C~~C~~~~~~~h~dv~-eldaas~---~gI--d~IR  103 (535)
T PRK08451         36 AHAYLFSGLRGSGKTSSARIFARALVCEQGPS-----STPCDT-CIQCQSALENRHIDII-EMDAASN---RGI--DDIR  103 (535)
T ss_pred             CeeEEEECCCCCcHHHHHHHHHHHhcCCCCCC-----CCCCcc-cHHHHHHhhcCCCeEE-Eeccccc---cCH--HHHH
Confidence            35568999999999999999999874211100     000000 0000000   000000 1111110   011  2334


Q ss_pred             HHhcC-----CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEE
Q psy4734         259 EMAVS-----TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIY  333 (367)
Q Consensus       259 ~~~~~-----~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~  333 (367)
                      +....     .....+-+|+|. +|..--+..|.+|.        .=|  ..|+++.|||-+.+....-|+..|||-.++
T Consensus       104 elie~~~~~P~~~~~KVvIIDE-ad~Lt~~A~NALLK--------~LE--Epp~~t~FIL~ttd~~kL~~tI~SRc~~~~  172 (535)
T PRK08451        104 ELIEQTKYKPSMARFKIFIIDE-VHMLTKEAFNALLK--------TLE--EPPSYVKFILATTDPLKLPATILSRTQHFR  172 (535)
T ss_pred             HHHHHHhhCcccCCeEEEEEEC-cccCCHHHHHHHHH--------HHh--hcCCceEEEEEECChhhCchHHHhhceeEE
Confidence            43321     224578999995 45555555555431        111  136788899999898888899999999999


Q ss_pred             ecccCCchHHHHHHHHHH
Q psy4734         334 FELKCISWTTFFLSYQNE  351 (367)
Q Consensus       334 ~~~~~~~~~~~~~swl~~  351 (367)
                      +.+-.   ..-+..|+..
T Consensus       173 F~~Ls---~~ei~~~L~~  187 (535)
T PRK08451        173 FKQIP---QNSIISHLKT  187 (535)
T ss_pred             cCCCC---HHHHHHHHHH
Confidence            98765   2445556543

>TIGR00763 lon ATP-dependent protease La

Probab=96.86  E-value=0.002  Score=69.84  Aligned_cols=131  Identities=16%  Similarity=0.210  Sum_probs=71.8

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccceecccccccc---cchHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGEFDSASHEWR---DGILAKTFRE  259 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~~d~~~~~W~---dGil~~~~r~  259 (367)
                      .++|+||||+|||++.+.++.++..              ....++.... +..++.|..    ..|.   .|-+...+++
T Consensus       349 ~lll~GppG~GKT~lAk~iA~~l~~--------------~~~~i~~~~~~~~~~i~g~~----~~~~g~~~g~i~~~l~~  410 (775)
T TIGR00763       349 ILCLVGPPGVGKTSLGKSIAKALNR--------------KFVRFSLGGVRDEAEIRGHR----RTYVGAMPGRIIQGLKK  410 (775)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcC--------------CeEEEeCCCcccHHHHcCCC----CceeCCCCchHHHHHHH
Confidence            4788999999999999999988742              1222322221 233343321    1222   3334444444


Q ss_pred             HhcCCCCCceEEEEcCCCChH-------hhhhhhhccCC--CCce-eecccceeecCCCCeEEEecCCCCccCcchhhce
Q psy4734         260 MAVSTTPDRKWIMFDGPIDAV-------WIENMNTVLDD--NKKL-CLINGEIIKMSNTMNLIFECENLEFASPATVSRV  329 (367)
Q Consensus       260 ~~~~~~~~~~wivfDG~~d~~-------wie~lnsvldd--n~~l-~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRc  329 (367)
                      +.    .....|++| .+|..       -...|-.+||+  +..+ .---+..+.++ ++-||+=+..+....|+..+||
T Consensus       411 ~~----~~~~villD-Eidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s-~v~~I~TtN~~~~i~~~L~~R~  484 (775)
T TIGR00763       411 AK----TKNPLFLLD-EIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLS-KVIFIATANSIDTIPRPLLDRM  484 (775)
T ss_pred             hC----cCCCEEEEe-chhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccC-CEEEEEecCCchhCCHHHhCCe
Confidence            32    122378888 33322       12445566664  2211 11112223333 4546665556778899999999


Q ss_pred             eeEEecccC
Q psy4734         330 GMIYFELKC  338 (367)
Q Consensus       330 g~v~~~~~~  338 (367)
                      -+|.+.+-.
T Consensus       485 ~vi~~~~~~  493 (775)
T TIGR00763       485 EVIELSGYT  493 (775)
T ss_pred             eEEecCCCC
Confidence            998887643

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.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.85  E-value=0.0007  Score=72.99  Aligned_cols=135  Identities=16%  Similarity=0.175  Sum_probs=75.1

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccc----cceecccccccccch--HHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQL----YGEFDSASHEWRDGI--LAK  255 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l----~G~~d~~~~~W~dGi--l~~  255 (367)
                      .|..+|.||+|+||||+.+++++.+.--....     ..++.   .-..|....+.    +-.+|..+   ..|+  +-.
T Consensus        38 ~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~-----~~pCg---~C~sC~~i~~g~~~DviEidAas---~~kVDdIRe  106 (944)
T PRK14949         38 HHAYLFTGTRGVGKTSLARLFAKGLNCEQGVT-----ATPCG---VCSSCVEIAQGRFVDLIEVDAAS---RTKVDDTRE  106 (944)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhccCccCCC-----CCCCC---CchHHHHHhcCCCceEEEecccc---ccCHHHHHH
Confidence            46678999999999999999999885321100     00000   00000000000    01122221   1121  111


Q ss_pred             HHHHHhc-CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEe
Q psy4734         256 TFREMAV-STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYF  334 (367)
Q Consensus       256 ~~r~~~~-~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~  334 (367)
                      ++..... ......+-+|+| .+|..-.+.+|.+|-   +     -|  ..|.+++||+=+++.....|+.+|||-.+.+
T Consensus       107 Lie~v~~~P~~gk~KViIID-EAh~LT~eAqNALLK---t-----LE--EPP~~vrFILaTTe~~kLl~TIlSRCq~f~f  175 (944)
T PRK14949        107 LLDNVQYRPSRGRFKVYLID-EVHMLSRSSFNALLK---T-----LE--EPPEHVKFLLATTDPQKLPVTVLSRCLQFNL  175 (944)
T ss_pred             HHHHHHhhhhcCCcEEEEEe-chHhcCHHHHHHHHH---H-----Hh--ccCCCeEEEEECCCchhchHHHHHhheEEeC
Confidence            2211111 123467899999 666655666666531   0     01  1366888999999999998888999999998


Q ss_pred             cccC
Q psy4734         335 ELKC  338 (367)
Q Consensus       335 ~~~~  338 (367)
                      .+-.
T Consensus       176 kpLs  179 (944)
T PRK14949        176 KSLT  179 (944)
T ss_pred             CCCC
Confidence            8753

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.80  E-value=0.0063  Score=66.55  Aligned_cols=150  Identities=19%  Similarity=0.164  Sum_probs=88.8

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEe--CCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKII--NPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~i--npka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      ++|.||+|+|||.+.+.|++.+-.-         ...+....+  +....+...|+|..-.--+.=..|.++..+|+   
T Consensus       599 ~lf~Gp~GvGKT~lA~~La~~l~~~---------~~~~~~~dmse~~~~~~~~~l~g~~~gyvg~~~~g~L~~~v~~---  666 (852)
T TIGR03345       599 FLLVGPSGVGKTETALALAELLYGG---------EQNLITINMSEFQEAHTVSRLKGSPPGYVGYGEGGVLTEAVRR---  666 (852)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhCC---------CcceEEEeHHHhhhhhhhccccCCCCCcccccccchHHHHHHh---
Confidence            6788999999999999998886311         111211111  11223444555531000011146888888875   


Q ss_pred             CCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC----------------------
Q psy4734         263 STTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL----------------------  318 (367)
Q Consensus       263 ~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l----------------------  318 (367)
                         .+..-|+||  ...++.-.+.|-.++|+. .++-+.|..+.+.+.. +|+ |+|+                      
T Consensus       667 ---~p~svvllDEieka~~~v~~~Llq~ld~g-~l~d~~Gr~vd~~n~i-iI~-TSNlg~~~~~~~~~~~~~~~~~~~~~  740 (852)
T TIGR03345       667 ---KPYSVVLLDEVEKAHPDVLELFYQVFDKG-VMEDGEGREIDFKNTV-ILL-TSNAGSDLIMALCADPETAPDPEALL  740 (852)
T ss_pred             ---CCCcEEEEechhhcCHHHHHHHHHHhhcc-eeecCCCcEEeccccE-EEE-eCCCchHHHHHhccCcccCcchHHHH
Confidence               345789999  445666666666777764 5677788888877533 333 2332                      


Q ss_pred             --------CccCcchhhceeeEEecccCC-chHHHHHHHHHHh
Q psy4734         319 --------EFASPATVSRVGMIYFELKCI-SWTTFFLSYQNEL  352 (367)
Q Consensus       319 --------~~asPatvsRcg~v~~~~~~~-~~~~~~~swl~~~  352 (367)
                              ..-.|+.++||-+|.+.|-.- .-..++..-++.+
T Consensus       741 ~~~~~~~~~~f~PEflnRi~iI~F~pLs~e~l~~Iv~~~L~~l  783 (852)
T TIGR03345       741 EALRPELLKVFKPAFLGRMTVIPYLPLDDDVLAAIVRLKLDRI  783 (852)
T ss_pred             HHHHHHHHHhccHHHhcceeEEEeCCCCHHHHHHHHHHHHHHH
Confidence                    125688999999888876532 1334444444443

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.

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

Probab=96.80  E-value=0.0029  Score=61.56  Aligned_cols=131  Identities=18%  Similarity=0.231  Sum_probs=84.3

Q ss_pred             HhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCC-CCccccccceecc-------ccccccc
Q psy4734         179 FEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPK-SITMGQLYGEFDS-------ASHEWRD  250 (367)
Q Consensus       179 ~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpk-a~t~~~l~G~~d~-------~~~~W~d  250 (367)
                      +.....+++.|+||+|||++.+.++++++.              ....++.. .++-.+++|.++.       ....|.+
T Consensus        40 ~~~~~~vll~G~PG~gKT~la~~lA~~l~~--------------~~~~i~~t~~l~p~d~~G~~~~~~~~~~~~~~~~~~  105 (329)
T COG0714          40 LLAGGHVLLEGPPGVGKTLLARALARALGL--------------PFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVP  105 (329)
T ss_pred             HHcCCCEEEECCCCccHHHHHHHHHHHhCC--------------CeEEEecCCCCCHHHhcCchhHhhhhccCCeEEEec
Confidence            344555889999999999999999998851              12233333 3456778887633       2346999


Q ss_pred             chHHHHHHHHhcCCCCCceEEEEcCCCChHhhh---hhhhccCCCCceeecccce-eecCCCCeEEEecCC------CCc
Q psy4734         251 GILAKTFREMAVSTTPDRKWIMFDGPIDAVWIE---NMNTVLDDNKKLCLINGEI-IKMSNTMNLIFECEN------LEF  320 (367)
Q Consensus       251 Gil~~~~r~~~~~~~~~~~wivfDG~~d~~wie---~lnsvlddn~~l~L~~ge~-i~l~~~~~~ifE~~~------l~~  320 (367)
                      |.+...++          ..+++| .++..-.+   .|..+|++...---  |.+ +++++.+ +++-|+|      -..
T Consensus       106 gpl~~~~~----------~ill~D-EInra~p~~q~aLl~~l~e~~vtv~--~~~~~~~~~~f-~viaT~Np~e~~g~~~  171 (329)
T COG0714         106 GPLFAAVR----------VILLLD-EINRAPPEVQNALLEALEERQVTVP--GLTTIRLPPPF-IVIATQNPGEYEGTYP  171 (329)
T ss_pred             CCcccccc----------eEEEEe-ccccCCHHHHHHHHHHHhCcEEEEC--CcCCcCCCCCC-EEEEccCccccCCCcC
Confidence            98766654          467778 55444444   44455555433332  334 7777776 5556655      333


Q ss_pred             cCcchhhce-eeEEeccc
Q psy4734         321 ASPATVSRV-GMIYFELK  337 (367)
Q Consensus       321 asPatvsRc-g~v~~~~~  337 (367)
                      ...|...|| --+|++--
T Consensus       172 l~eA~ldRf~~~~~v~yp  189 (329)
T COG0714         172 LPEALLDRFLLRIYVDYP  189 (329)
T ss_pred             CCHHHHhhEEEEEecCCC
Confidence            566999999 77777744

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

Probab=96.79  E-value=0.0034  Score=67.54  Aligned_cols=145  Identities=18%  Similarity=0.210  Sum_probs=83.4

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCC----CCccccccceecccccccccchHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPK----SITMGQLYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpk----a~t~~~l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      .++|+||+|+|||++.+.|++.++.            +  ...++..    ..+...|+|.-..-.+....|.++..+|+
T Consensus       490 ~~Lf~GP~GvGKT~lAk~LA~~l~~------------~--~i~id~se~~~~~~~~~LiG~~~gyvg~~~~g~L~~~v~~  555 (758)
T PRK11034        490 SFLFAGPTGVGKTEVTVQLSKALGI------------E--LLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIK  555 (758)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC------------C--cEEeechhhcccccHHHHcCCCCCcccccccchHHHHHHh
Confidence            4788999999999999999887731            1  1122222    23457788742111122356788888875


Q ss_pred             HhcCCCCCceEEEEcCCCC---hHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC-----------------
Q psy4734         260 MAVSTTPDRKWIMFDGPID---AVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE-----------------  319 (367)
Q Consensus       260 ~~~~~~~~~~wivfDG~~d---~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~-----------------  319 (367)
                      .      ...-++|| .+|   +.-...|-.+||+ ..++-..|..+.+.+.  +++=|+|+.                 
T Consensus       556 ~------p~sVlllD-Eieka~~~v~~~LLq~ld~-G~ltd~~g~~vd~rn~--iiI~TsN~g~~~~~~~~~g~~~~~~~  625 (758)
T PRK11034        556 H------PHAVLLLD-EIEKAHPDVFNLLLQVMDN-GTLTDNNGRKADFRNV--VLVMTTNAGVRETERKSIGLIHQDNS  625 (758)
T ss_pred             C------CCcEEEec-cHhhhhHHHHHHHHHHHhc-CeeecCCCceecCCCc--EEEEeCCcCHHHHhhcccCcccchhh
Confidence            3      34689999 444   4444445555654 5556566766655433  333344422                 


Q ss_pred             ---------ccCcchhhcee-eEEecccCC-chHHHHHHHHHHh
Q psy4734         320 ---------FASPATVSRVG-MIYFELKCI-SWTTFFLSYQNEL  352 (367)
Q Consensus       320 ---------~asPatvsRcg-~v~~~~~~~-~~~~~~~swl~~~  352 (367)
                               ...|..+.|+- +|.+.+-+- .-..++...+..+
T Consensus       626 ~~~~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~  669 (758)
T PRK11034        626 TDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVEL  669 (758)
T ss_pred             HHHHHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHH
Confidence                     24588888885 666655431 1344444444433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.78  E-value=0.0069  Score=63.34  Aligned_cols=149  Identities=20%  Similarity=0.171  Sum_probs=79.7

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEE----EEeCCCCCccccccceecccccccccchHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGY----KIINPKSITMGQLYGEFDSASHEWRDGILAKTF  257 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~----~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~  257 (367)
                      .|.++|.||+|+||||+.+.+++++.-.....     ..+...    ..+++..-...+++ .+|..+..=.|- +-.+.
T Consensus        35 ~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-----~~pCg~C~~C~~i~~~~~~~~dvi-eidaas~~gvd~-iRel~  107 (584)
T PRK14952         35 NHAYLFSGPRGCGKTSSARILARSLNCAQGPT-----ATPCGVCESCVALAPNGPGSIDVV-ELDAASHGGVDD-TRELR  107 (584)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhccccCCC-----CCcccccHHHHHhhcccCCCceEE-EeccccccCHHH-HHHHH
Confidence            45678999999999999999999886321100     000000    00111000000010 112211100010 11111


Q ss_pred             HHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecc
Q psy4734         258 REMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFEL  336 (367)
Q Consensus       258 r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~  336 (367)
                      ..+... .....+-+|+| .+|..-.+..|.+|.        .=|  ..|+++.|||-+++....-|+..|||-.+.+.+
T Consensus       108 ~~~~~~P~~~~~KVvIID-Eah~Lt~~A~NALLK--------~LE--Epp~~~~fIL~tte~~kll~TI~SRc~~~~F~~  176 (584)
T PRK14952        108 DRAFYAPAQSRYRIFIVD-EAHMVTTAGFNALLK--------IVE--EPPEHLIFIFATTEPEKVLPTIRSRTHHYPFRL  176 (584)
T ss_pred             HHHHhhhhcCCceEEEEE-CCCcCCHHHHHHHHH--------HHh--cCCCCeEEEEEeCChHhhHHHHHHhceEEEeeC
Confidence            111111 23467899999 355444556666531        111  256688899999999888888899999999986


Q ss_pred             cCCchHHHHHHHHHH
Q psy4734         337 KCISWTTFFLSYQNE  351 (367)
Q Consensus       337 ~~~~~~~~~~swl~~  351 (367)
                      -.-   .-+..||..
T Consensus       177 l~~---~~i~~~L~~  188 (584)
T PRK14952        177 LPP---RTMRALIAR  188 (584)
T ss_pred             CCH---HHHHHHHHH
Confidence            542   345566654

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.77  E-value=0.0021  Score=67.92  Aligned_cols=134  Identities=23%  Similarity=0.257  Sum_probs=72.6

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccc--eecccccccccchHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG--EFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G--~~d~~~~~W~dGil~~~~r~  259 (367)
                      .|.++|.||+|+||||+.+.+++++.--....     ..+... .-.+..+..+....  .+|..   ...|+  ..+|+
T Consensus        38 ~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~-----~~pCg~-C~sCr~i~~g~~~DvlEidaA---s~~gV--d~IRe  106 (709)
T PRK08691         38 HHAYLLTGTRGVGKTTIARILAKSLNCENAQH-----GEPCGV-CQSCTQIDAGRYVDLLEIDAA---SNTGI--DNIRE  106 (709)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHhcccCCCC-----CCCCcc-cHHHHHHhccCccceEEEecc---ccCCH--HHHHH
Confidence            47789999999999999999999875321100     000000 00001111111111  12221   12232  22333


Q ss_pred             Hhc----C-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEe
Q psy4734         260 MAV----S-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYF  334 (367)
Q Consensus       260 ~~~----~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~  334 (367)
                      ...    . .....+.+|+|. +|..--+..|.+|.     +|   |  ..+++++|||-+++.....|..+|||-.+.+
T Consensus       107 lle~a~~~P~~gk~KVIIIDE-ad~Ls~~A~NALLK-----tL---E--EPp~~v~fILaTtd~~kL~~TIrSRC~~f~f  175 (709)
T PRK08691        107 VLENAQYAPTAGKYKVYIIDE-VHMLSKSAFNAMLK-----TL---E--EPPEHVKFILATTDPHKVPVTVLSRCLQFVL  175 (709)
T ss_pred             HHHHHHhhhhhCCcEEEEEEC-ccccCHHHHHHHHH-----HH---H--hCCCCcEEEEEeCCccccchHHHHHHhhhhc
Confidence            321    1 224578999994 44433344444331     00   1  1456888999999999988888999988776


Q ss_pred             ccc
Q psy4734         335 ELK  337 (367)
Q Consensus       335 ~~~  337 (367)
                      .+-
T Consensus       176 ~~L  178 (709)
T PRK08691        176 RNM  178 (709)
T ss_pred             CCC
Confidence            544

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.74  E-value=0.0034  Score=64.64  Aligned_cols=138  Identities=17%  Similarity=0.164  Sum_probs=74.7

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhcc---------ccccceeEEEEeCCCCCccccccceecccccccccch-
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSA---------TMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGI-  252 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~---------~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGi-  252 (367)
                      |.++|.||+|+||||+.+.+++++.-.......         -.......+..+|+.              .   ..|+ 
T Consensus        37 ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el~~~--------------~---~~~vd   99 (504)
T PRK14963         37 HAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEIDAA--------------S---NNSVE   99 (504)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEeccc--------------c---cCCHH
Confidence            556899999999999999999988532110000         000001111222221              0   0111 


Q ss_pred             HHHHHHHHhc--CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee
Q psy4734         253 LAKTFREMAV--STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG  330 (367)
Q Consensus       253 l~~~~r~~~~--~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg  330 (367)
                      -.+-+++...  .....++.+|+|- +|..-.+.+|.++..     +.     ..+++..+|+-+++.....|+..|||.
T Consensus       100 ~iR~l~~~~~~~p~~~~~kVVIIDE-ad~ls~~a~naLLk~-----LE-----ep~~~t~~Il~t~~~~kl~~~I~SRc~  168 (504)
T PRK14963        100 DVRDLREKVLLAPLRGGRKVYILDE-AHMMSKSAFNALLKT-----LE-----EPPEHVIFILATTEPEKMPPTILSRTQ  168 (504)
T ss_pred             HHHHHHHHHhhccccCCCeEEEEEC-ccccCHHHHHHHHHH-----HH-----hCCCCEEEEEEcCChhhCChHHhcceE
Confidence            0111122111  1234678999994 454434444444321     11     124566778888888888899999999


Q ss_pred             eEEecccCCchHHHHHHHHHH
Q psy4734         331 MIYFELKCISWTTFFLSYQNE  351 (367)
Q Consensus       331 ~v~~~~~~~~~~~~~~swl~~  351 (367)
                      .+.+.+-.-   .-+..|+..
T Consensus       169 ~~~f~~ls~---~el~~~L~~  186 (504)
T PRK14963        169 HFRFRRLTE---EEIAGKLRR  186 (504)
T ss_pred             EEEecCCCH---HHHHHHHHH
Confidence            999986431   334445543

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=96.73  E-value=0.0056  Score=59.45  Aligned_cols=141  Identities=15%  Similarity=0.137  Sum_probs=87.3

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhc----------cccccceeEEEEeCCCCCccccccceeccccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS----------ATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRD  250 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~----------~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~d  250 (367)
                      ..|+.+|.||+|.||+++.+.+++++.-......          .-..+....++.+.|..              +   .
T Consensus        23 l~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~--------------~---~   85 (325)
T PRK06871         23 GHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPID--------------N---K   85 (325)
T ss_pred             cceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEcccc--------------C---C
Confidence            3588999999999999999999988842111000          00001112223333310              0   1


Q ss_pred             chHHHHHHHHh-----cCCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcch
Q psy4734         251 GILAKTFREMA-----VSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPAT  325 (367)
Q Consensus       251 Gil~~~~r~~~-----~~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPat  325 (367)
                      .+-..-+|+..     .......|.+|+| +.|..-.+.-|++|-   +|     |  ..|++..||+-+++....-|..
T Consensus        86 ~I~id~iR~l~~~~~~~~~~g~~KV~iI~-~a~~m~~~AaNaLLK---tL-----E--EPp~~~~fiL~t~~~~~llpTI  154 (325)
T PRK06871         86 DIGVDQVREINEKVSQHAQQGGNKVVYIQ-GAERLTEAAANALLK---TL-----E--EPRPNTYFLLQADLSAALLPTI  154 (325)
T ss_pred             CCCHHHHHHHHHHHhhccccCCceEEEEe-chhhhCHHHHHHHHH---Hh-----c--CCCCCeEEEEEECChHhCchHH
Confidence            12223344432     1234567899999 667666777777651   11     1  2467788899898999998988


Q ss_pred             hhceeeEEecccCCchHHHHHHHHHHh
Q psy4734         326 VSRVGMIYFELKCISWTTFFLSYQNEL  352 (367)
Q Consensus       326 vsRcg~v~~~~~~~~~~~~~~swl~~~  352 (367)
                      .|||-.+.+.+-.-   .-+..||...
T Consensus       155 ~SRC~~~~~~~~~~---~~~~~~L~~~  178 (325)
T PRK06871        155 YSRCQTWLIHPPEE---QQALDWLQAQ  178 (325)
T ss_pred             HhhceEEeCCCCCH---HHHHHHHHHH
Confidence            99999999987642   4566677653

>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=96.70  E-value=0.0042  Score=57.48  Aligned_cols=131  Identities=18%  Similarity=0.237  Sum_probs=69.6

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ...|..+.||+|+|||++++.|++++++.              .+++|+..-               -....++++++.+
T Consensus        31 ~~~~~~~~GpagtGKtetik~La~~lG~~--------------~~vfnc~~~---------------~~~~~l~ril~G~   81 (231)
T PF12774_consen   31 LNLGGALSGPAGTGKTETIKDLARALGRF--------------VVVFNCSEQ---------------MDYQSLSRILKGL   81 (231)
T ss_dssp             TTTEEEEESSTTSSHHHHHHHHHHCTT----------------EEEEETTSS---------------S-HHHHHHHHHHH
T ss_pred             cCCCCCCcCCCCCCchhHHHHHHHHhCCe--------------EEEeccccc---------------ccHHHHHHHHHHH
Confidence            34556678999999999999999888654              234444321               2233567777766


Q ss_pred             hcCCCCCceEEEEcCCCChHhhhhhhh-----------ccCCCCceeecccceeecCCCCeEEEecCCCCcc----Ccc-
Q psy4734         261 AVSTTPDRKWIMFDGPIDAVWIENMNT-----------VLDDNKKLCLINGEIIKMSNTMNLIFECENLEFA----SPA-  324 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~wie~lns-----------vlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~a----sPa-  324 (367)
                      +..    --|.+|| +++..-.+.|..           +-...+..++ .|+.|+++++..++. |-+..++    =|. 
T Consensus        82 ~~~----GaW~cfd-efnrl~~~vLS~i~~~i~~i~~al~~~~~~~~~-~g~~i~l~~~~~iFi-T~np~y~gr~~LP~n  154 (231)
T PF12774_consen   82 AQS----GAWLCFD-EFNRLSEEVLSVISQQIQSIQDALRAKQKSFTL-EGQEIKLNPNCGIFI-TMNPGYAGRSELPEN  154 (231)
T ss_dssp             HHH----T-EEEEE-TCCCSSHHHHHHHHHHHHHHHHHHHCTSSEEEE-TTCEEE--TT-EEEE-EE-B-CCCC--S-HH
T ss_pred             hhc----Cchhhhh-hhhhhhHHHHHHHHHHHHHHHHhhccccccccc-CCCEEEEccceeEEE-eeccccCCcccCCHh
Confidence            554    3799999 444443333332           2234555555 588999999987665 3343222    232 


Q ss_pred             hhhceeeEEecccCCchHHHHHHHH
Q psy4734         325 TVSRVGMIYFELKCISWTTFFLSYQ  349 (367)
Q Consensus       325 tvsRcg~v~~~~~~~~~~~~~~swl  349 (367)
                      .-+-+--|.|...|  ...+.+-+|
T Consensus       155 Lk~lFRpvam~~PD--~~~I~ei~L  177 (231)
T PF12774_consen  155 LKALFRPVAMMVPD--LSLIAEILL  177 (231)
T ss_dssp             HCTTEEEEE--S----HHHHHHHHH
T ss_pred             HHHHhheeEEeCCC--HHHHHHHHH
Confidence            22334455555444  445555555

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.69  E-value=0.0062  Score=59.03  Aligned_cols=142  Identities=15%  Similarity=0.164  Sum_probs=87.2

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhc---------cccccceeEEEEeCCCCCccccccceecccccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS---------ATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDG  251 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~---------~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dG  251 (367)
                      ..|.++|.||.|.||+++...+++++.-......         ....+..-.++.+.|..-            ..    .
T Consensus        24 l~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~------------~~----~   87 (319)
T PRK06090         24 IPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKE------------GK----S   87 (319)
T ss_pred             cceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcC------------CC----c
Confidence            4578999999999999999999988742211000         000111222333444210            00    0


Q ss_pred             hHHHHHHHHh-----cCCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchh
Q psy4734         252 ILAKTFREMA-----VSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATV  326 (367)
Q Consensus       252 il~~~~r~~~-----~~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatv  326 (367)
                      |-..-+|+..     +....+.|.+|+| +.|..=.+.-|++|-   +|     |  ..|++..||+-+++....-|..+
T Consensus        88 I~vdqiR~l~~~~~~~~~~~~~kV~iI~-~ae~m~~~AaNaLLK---tL-----E--EPp~~t~fiL~t~~~~~lLpTI~  156 (319)
T PRK06090         88 ITVEQIRQCNRLAQESSQLNGYRLFVIE-PADAMNESASNALLK---TL-----E--EPAPNCLFLLVTHNQKRLLPTIV  156 (319)
T ss_pred             CCHHHHHHHHHHHhhCcccCCceEEEec-chhhhCHHHHHHHHH---Hh-----c--CCCCCeEEEEEECChhhChHHHH
Confidence            1111223321     1234567999999 666666667777651   11     1  24667889999999999999999


Q ss_pred             hceeeEEecccCCchHHHHHHHHHHh
Q psy4734         327 SRVGMIYFELKCISWTTFFLSYQNEL  352 (367)
Q Consensus       327 sRcg~v~~~~~~~~~~~~~~swl~~~  352 (367)
                      |||-.+.+.+-.   ...+..|+...
T Consensus       157 SRCq~~~~~~~~---~~~~~~~L~~~  179 (319)
T PRK06090        157 SRCQQWVVTPPS---TAQAMQWLKGQ  179 (319)
T ss_pred             hcceeEeCCCCC---HHHHHHHHHHc
Confidence            999999998654   35667777653

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

Probab=96.67  E-value=0.0069  Score=65.31  Aligned_cols=147  Identities=19%  Similarity=0.221  Sum_probs=82.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEe--CCCCCccccccceeccccccc-ccchHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKII--NPKSITMGQLYGEFDSASHEW-RDGILAKTFREM  260 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~i--npka~t~~~l~G~~d~~~~~W-~dGil~~~~r~~  260 (367)
                      .++|+||+|+|||++.+.|++.+..            ++....+  +....+...+.|.... -... ..|.++..+|+ 
T Consensus       486 ~~lf~Gp~GvGKT~lA~~la~~l~~------------~~~~~d~se~~~~~~~~~lig~~~g-yvg~~~~~~l~~~~~~-  551 (731)
T TIGR02639       486 SFLFTGPTGVGKTELAKQLAEALGV------------HLERFDMSEYMEKHTVSRLIGAPPG-YVGFEQGGLLTEAVRK-  551 (731)
T ss_pred             eEEEECCCCccHHHHHHHHHHHhcC------------CeEEEeCchhhhcccHHHHhcCCCC-CcccchhhHHHHHHHh-
Confidence            3678999999999999999987731            1111111  1222334445554210 0011 24677777774 


Q ss_pred             hcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC-------------------
Q psy4734         261 AVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE-------------------  319 (367)
Q Consensus       261 ~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~-------------------  319 (367)
                           ....-++||  ...++.-...|-.++|+ ..++-..|..+.+.+.  +++-|+|+.                   
T Consensus       552 -----~p~~VvllDEieka~~~~~~~Ll~~ld~-g~~~d~~g~~vd~~~~--iii~Tsn~g~~~~~~~~~~f~~~~~~~~  623 (731)
T TIGR02639       552 -----HPHCVLLLDEIEKAHPDIYNILLQVMDY-ATLTDNNGRKADFRNV--ILIMTSNAGASEMSKPPIGFGSENVESK  623 (731)
T ss_pred             -----CCCeEEEEechhhcCHHHHHHHHHhhcc-CeeecCCCcccCCCCC--EEEECCCcchhhhhhccCCcchhhhHHH
Confidence                 245899999  23455555566666665 4566667776666543  344455542                   


Q ss_pred             -------ccCcchhhcee-eEEecccCC-chHHHHHHHHHHh
Q psy4734         320 -------FASPATVSRVG-MIYFELKCI-SWTTFFLSYQNEL  352 (367)
Q Consensus       320 -------~asPatvsRcg-~v~~~~~~~-~~~~~~~swl~~~  352 (367)
                             ...|..+.|.. +|.+.|-+- .-..++..-++.+
T Consensus       624 ~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l  665 (731)
T TIGR02639       624 SDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDEL  665 (731)
T ss_pred             HHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHH
Confidence                   24677888886 555555331 1334444444433

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=96.67  E-value=0.0047  Score=64.80  Aligned_cols=141  Identities=16%  Similarity=0.202  Sum_probs=80.1

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhc--c-------------ccccceeEEEEeCCCCCccccccceecccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS--A-------------TMKEFKTGYKIINPKSITMGQLYGEFDSAS  245 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~--~-------------~~~~~~v~~~~inpka~t~~~l~G~~d~~~  245 (367)
                      ..|.++|.||+|+||||+.+.+++++.-......  +             ...+....+..++|.+.             
T Consensus        45 i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g~h~Dv~e~~a~s~-------------  111 (598)
T PRK09111         45 IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEGRHVDVLEMDAASH-------------  111 (598)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcCCCCceEEeccccc-------------
Confidence            3578999999999999999999998853211000  0             00111122222333211             


Q ss_pred             cccccch--HHHHHHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccC
Q psy4734         246 HEWRDGI--LAKTFREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFAS  322 (367)
Q Consensus       246 ~~W~dGi--l~~~~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~as  322 (367)
                          -|+  +-.++..+... -...+|-+|+| ++|..-.+..|.+|.     +|   |  ..++++.|||-+++.....
T Consensus       112 ----~gvd~IReIie~~~~~P~~a~~KVvIID-Ead~Ls~~a~naLLK-----tL---E--ePp~~~~fIl~tte~~kll  176 (598)
T PRK09111        112 ----TGVDDIREIIESVRYRPVSARYKVYIID-EVHMLSTAAFNALLK-----TL---E--EPPPHVKFIFATTEIRKVP  176 (598)
T ss_pred             ----CCHHHHHHHHHHHHhchhcCCcEEEEEE-ChHhCCHHHHHHHHH-----HH---H--hCCCCeEEEEEeCChhhhh
Confidence                111  11122222111 23457889999 455444445555431     11   1  2467888999999998888


Q ss_pred             cchhhceeeEEecccCCchHHHHHHHHHHh
Q psy4734         323 PATVSRVGMIYFELKCISWTTFFLSYQNEL  352 (367)
Q Consensus       323 PatvsRcg~v~~~~~~~~~~~~~~swl~~~  352 (367)
                      |...|||-.+.+.+-.-   .-+..|+.+.
T Consensus       177 ~tI~SRcq~~~f~~l~~---~el~~~L~~i  203 (598)
T PRK09111        177 VTVLSRCQRFDLRRIEA---DVLAAHLSRI  203 (598)
T ss_pred             HHHHhheeEEEecCCCH---HHHHHHHHHH
Confidence            88899999988875431   3455566553

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=96.67  E-value=0.0026  Score=61.43  Aligned_cols=134  Identities=18%  Similarity=0.174  Sum_probs=78.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ..|..+|.||+|+|||++.+.+++++.-  ....    ...-.++.+.|.       -|      .    .+-..-+|+.
T Consensus        25 ~~ha~Lf~G~~G~Gk~~la~~~a~~l~c--~~~~----~~h~D~~~~~~~-------~~------~----~i~v~~ir~~   81 (313)
T PRK05564         25 FSHAHIIVGEDGIGKSLLAKEIALKILG--KSQQ----REYVDIIEFKPI-------NK------K----SIGVDDIRNI   81 (313)
T ss_pred             CCceEEeECCCCCCHHHHHHHHHHHHcC--CCCC----CCCCCeEEeccc-------cC------C----CCCHHHHHHH
Confidence            4467789999999999999999887732  1100    001111122221       00      0    0111223443


Q ss_pred             hc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEec
Q psy4734         261 AV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE  335 (367)
Q Consensus       261 ~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~  335 (367)
                      ..     .-..++|.+|+|. +|..-.+.-|++|.     +|   |  ..|++..+|+=+++...+-|+..|||-++++.
T Consensus        82 ~~~~~~~p~~~~~kv~iI~~-ad~m~~~a~naLLK-----~L---E--epp~~t~~il~~~~~~~ll~TI~SRc~~~~~~  150 (313)
T PRK05564         82 IEEVNKKPYEGDKKVIIIYN-SEKMTEQAQNAFLK-----TI---E--EPPKGVFIILLCENLEQILDTIKSRCQIYKLN  150 (313)
T ss_pred             HHHHhcCcccCCceEEEEec-hhhcCHHHHHHHHH-----Hh---c--CCCCCeEEEEEeCChHhCcHHHHhhceeeeCC
Confidence            32     2234678999995 44444445555541     11   1  24667888888888989999889999999997


Q ss_pred             ccCCchHHHHHHHHHH
Q psy4734         336 LKCISWTTFFLSYQNE  351 (367)
Q Consensus       336 ~~~~~~~~~~~swl~~  351 (367)
                      +-.-   .-+..|+..
T Consensus       151 ~~~~---~~~~~~l~~  163 (313)
T PRK05564        151 RLSK---EEIEKFISY  163 (313)
T ss_pred             CcCH---HHHHHHHHH
Confidence            6431   334667654

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.66  E-value=0.0039  Score=60.63  Aligned_cols=149  Identities=16%  Similarity=0.130  Sum_probs=81.0

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhc-----------cccccceeEEEEeCCCCCccccccceeccccccc
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS-----------ATMKEFKTGYKIINPKSITMGQLYGEFDSASHEW  248 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~-----------~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W  248 (367)
                      ...|+++|.||+|+|||++.+.+++++.-......           ....+..-.++.+.|..-.         ...+..
T Consensus        19 r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~---------~~~g~~   89 (325)
T PRK08699         19 RRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDE---------PENGRK   89 (325)
T ss_pred             CcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEeccccc---------cccccc
Confidence            34577889999999999999999998742110000           0001112233344442200         000101


Q ss_pred             ccchHHHHHHHHhc----CC-CCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCc
Q psy4734         249 RDGILAKTFREMAV----ST-TPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASP  323 (367)
Q Consensus       249 ~dGil~~~~r~~~~----~~-~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asP  323 (367)
                      ...+-..-+|+...    .. ...+|.++. -|.+..-.+.-|.++.     +|   |.  .+++..+|+-+++...+.|
T Consensus        90 ~~~I~id~iR~l~~~~~~~p~~~~~kV~ii-Ep~~~Ld~~a~naLLk-----~L---Ee--p~~~~~~Ilvth~~~~ll~  158 (325)
T PRK08699         90 LLQIKIDAVREIIDNVYLTSVRGGLRVILI-HPAESMNLQAANSLLK-----VL---EE--PPPQVVFLLVSHAADKVLP  158 (325)
T ss_pred             CCCcCHHHHHHHHHHHhhCcccCCceEEEE-echhhCCHHHHHHHHH-----HH---Hh--CcCCCEEEEEeCChHhChH
Confidence            11122223444322    22 234566655 4765555555554432     00   11  1345778998888888888


Q ss_pred             chhhceeeEEecccCCchHHHHHHHHHH
Q psy4734         324 ATVSRVGMIYFELKCISWTTFFLSYQNE  351 (367)
Q Consensus       324 atvsRcg~v~~~~~~~~~~~~~~swl~~  351 (367)
                      ...|||-.+.+.+-.-   .-+..||..
T Consensus       159 ti~SRc~~~~~~~~~~---~~~~~~L~~  183 (325)
T PRK08699        159 TIKSRCRKMVLPAPSH---EEALAYLRE  183 (325)
T ss_pred             HHHHHhhhhcCCCCCH---HHHHHHHHh
Confidence            8899999999987542   456677754

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=96.57  E-value=0.0019  Score=63.49  Aligned_cols=150  Identities=18%  Similarity=0.178  Sum_probs=83.2

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCC--CC--------cccccc---ceecccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPK--SI--------TMGQLY---GEFDSASHE  247 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpk--a~--------t~~~l~---G~~d~~~~~  247 (367)
                      ..|.++|.||+|+||||+.+.+++.+..-.....     .+.  ...+|-  +.        +..+++   ...|+.++.
T Consensus        44 l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~-----~~~--~~~~~~~~c~~c~~i~~~~hPdl~~l~~~~~~~~~~  116 (351)
T PRK09112         44 LHHALLFEGPEGIGKATLAFHLANHILSHPDPAE-----APE--TLADPDPASPVWRQIAQGAHPNLLHITRPFDEKTGK  116 (351)
T ss_pred             CCeeEeeECCCCCCHHHHHHHHHHHHcCCCcccc-----Ccc--ccCCCCCCCHHHHHHHcCCCCCEEEeeccccccccc
Confidence            3467999999999999999999887743110000     000  000110  10        111111   111222222


Q ss_pred             cccchHHHHHHHHhc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccC
Q psy4734         248 WRDGILAKTFREMAV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFAS  322 (367)
Q Consensus       248 W~dGil~~~~r~~~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~as  322 (367)
                      ...++-..-+|+...     ......+.+|+| ++|..-.+..|.+|.        +=|.  .+.+..+|+=+++.....
T Consensus       117 ~~~~I~vd~iR~l~~~l~~~~~~g~~rVviID-eAd~l~~~aanaLLk--------~LEE--pp~~~~fiLit~~~~~ll  185 (351)
T PRK09112        117 FKTAITVDEIRRVGHFLSQTSGDGNWRIVIID-PADDMNRNAANAILK--------TLEE--PPARALFILISHSSGRLL  185 (351)
T ss_pred             ccccCCHHHHHHHHHHhhhccccCCceEEEEE-chhhcCHHHHHHHHH--------HHhc--CCCCceEEEEECChhhcc
Confidence            233343444555432     233467889999 666555555565431        1122  244566677777777888


Q ss_pred             cchhhceeeEEecccCCchHHHHHHHHHH
Q psy4734         323 PATVSRVGMIYFELKCISWTTFFLSYQNE  351 (367)
Q Consensus       323 PatvsRcg~v~~~~~~~~~~~~~~swl~~  351 (367)
                      |...|||-.+.+.+-.-   .-+..||..
T Consensus       186 ptIrSRc~~i~l~pl~~---~~~~~~L~~  211 (351)
T PRK09112        186 PTIRSRCQPISLKPLDD---DELKKALSH  211 (351)
T ss_pred             HHHHhhccEEEecCCCH---HHHHHHHHH
Confidence            99999999999987542   445667665

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=96.55  E-value=0.0043  Score=66.01  Aligned_cols=137  Identities=18%  Similarity=0.229  Sum_probs=74.0

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccch--HHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGI--LAKTFR  258 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGi--l~~~~r  258 (367)
                      ..|..+|.||+|+|||++++.+++++.-.....    ...+.... ........+ ++ .+|..+   ..|+  +-.+..
T Consensus        39 l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~----~~~pC~~C-~~~~~~~~D-vi-eidaas---n~~vd~IReLie  108 (725)
T PRK07133         39 ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTD----LLEPCQEC-IENVNNSLD-II-EMDAAS---NNGVDEIRELIE  108 (725)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHhcccccCC----CCCchhHH-HHhhcCCCc-EE-EEeccc---cCCHHHHHHHHH
Confidence            356788999999999999999999875321100    00000000 000000000 00 112211   1121  122222


Q ss_pred             HHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEeccc
Q psy4734         259 EMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       259 ~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~  337 (367)
                      .+... ....++-+|+|. +|..-.+..|.+|.-     |   |  ..|+++.+||-+++....-|+..|||..+.+.+-
T Consensus       109 ~~~~~P~~g~~KV~IIDE-a~~LT~~A~NALLKt-----L---E--EPP~~tifILaTte~~KLl~TI~SRcq~ieF~~L  177 (725)
T PRK07133        109 NVKNLPTQSKYKIYIIDE-VHMLSKSAFNALLKT-----L---E--EPPKHVIFILATTEVHKIPLTILSRVQRFNFRRI  177 (725)
T ss_pred             HHHhchhcCCCEEEEEEC-hhhCCHHHHHHHHHH-----h---h--cCCCceEEEEEcCChhhhhHHHHhhceeEEccCC
Confidence            22222 235678899994 444444555555311     0   1  1366788899998888888888999999998765


Q ss_pred             C
Q psy4734         338 C  338 (367)
Q Consensus       338 ~  338 (367)
                      .
T Consensus       178 ~  178 (725)
T PRK07133        178 S  178 (725)
T ss_pred             C
Confidence            3

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.53  E-value=0.0086  Score=58.04  Aligned_cols=144  Identities=20%  Similarity=0.225  Sum_probs=88.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhcc---------ccccceeEEEEe--CCCCCccccccceecccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSA---------TMKEFKTGYKII--NPKSITMGQLYGEFDSASHEWR  249 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~---------~~~~~~v~~~~i--npka~t~~~l~G~~d~~~~~W~  249 (367)
                      ..|.++|.||+|.||+++...+++++.  +.....         ...+..-.++.+  .|..-.            ..=.
T Consensus        25 l~HA~Lf~Gp~G~GK~~lA~~lA~~Ll--C~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~------------~k~~   90 (319)
T PRK08769         25 LGHGLLICGPEGLGKRAVALALAEHVL--ASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTG------------DKLR   90 (319)
T ss_pred             cceeEeeECCCCCCHHHHHHHHHHHHh--CCCCCCCCcchHHHHHhcCCCCCEEEEecCCCccc------------cccc
Confidence            457899999999999999999998873  221100         000111122222  221100            0000


Q ss_pred             cchHHHHHHHHhc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcc
Q psy4734         250 DGILAKTFREMAV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPA  324 (367)
Q Consensus       250 dGil~~~~r~~~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPa  324 (367)
                      -.|-..-+|+...     ......|.+|+| +.|..-.+.-|++|-   +|     |  .-|++..||.-+++....-|.
T Consensus        91 ~~I~idqIR~l~~~~~~~p~~g~~kV~iI~-~ae~m~~~AaNaLLK---tL-----E--EPp~~~~fiL~~~~~~~lLpT  159 (319)
T PRK08769         91 TEIVIEQVREISQKLALTPQYGIAQVVIVD-PADAINRAACNALLK---TL-----E--EPSPGRYLWLISAQPARLPAT  159 (319)
T ss_pred             ccccHHHHHHHHHHHhhCcccCCcEEEEec-cHhhhCHHHHHHHHH---Hh-----h--CCCCCCeEEEEECChhhCchH
Confidence            1133445666543     223467999999 777777777777752   11     1  235677788889999999898


Q ss_pred             hhhceeeEEecccCCchHHHHHHHHHHh
Q psy4734         325 TVSRVGMIYFELKCISWTTFFLSYQNEL  352 (367)
Q Consensus       325 tvsRcg~v~~~~~~~~~~~~~~swl~~~  352 (367)
                      ..|||-.+.+.+-.-   .-+..||...
T Consensus       160 IrSRCq~i~~~~~~~---~~~~~~L~~~  184 (319)
T PRK08769        160 IRSRCQRLEFKLPPA---HEALAWLLAQ  184 (319)
T ss_pred             HHhhheEeeCCCcCH---HHHHHHHHHc
Confidence            899999999986432   4566787653

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.52  E-value=0.0043  Score=64.68  Aligned_cols=135  Identities=19%  Similarity=0.213  Sum_probs=69.5

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEE----EeCCCCCccccccceecccccccccch--HHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYK----IINPKSITMGQLYGEFDSASHEWRDGI--LAK  255 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~----~inpka~t~~~l~G~~d~~~~~W~dGi--l~~  255 (367)
                      .|+++|.||+|+||||+++.+++++.-......     .+....    .+...  +..+++ .+|+.   ..-|+  +-.
T Consensus        38 ~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~-----~~Cg~C~sCr~i~~~--~h~Dii-eIdaa---s~igVd~IRe  106 (605)
T PRK05896         38 THAYIFSGPRGIGKTSIAKIFAKAINCLNPKDG-----DCCNSCSVCESINTN--QSVDIV-ELDAA---SNNGVDEIRN  106 (605)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhcCCCCCCC-----CCCcccHHHHHHHcC--CCCceE-Eeccc---cccCHHHHHH
Confidence            477899999999999999999998853211000     000000    00000  001111 11221   11121  112


Q ss_pred             HHHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEe
Q psy4734         256 TFREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYF  334 (367)
Q Consensus       256 ~~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~  334 (367)
                      ++..+... ...+++-+|+|. +|..-.+..|.+|.     +|   |  ..|++..+||-+++....-|+..|||-.+.+
T Consensus       107 Ii~~~~~~P~~~~~KVIIIDE-ad~Lt~~A~NaLLK-----tL---E--EPp~~tvfIL~Tt~~~KLl~TI~SRcq~ieF  175 (605)
T PRK05896        107 IIDNINYLPTTFKYKVYIIDE-AHMLSTSAWNALLK-----TL---E--EPPKHVVFIFATTEFQKIPLTIISRCQRYNF  175 (605)
T ss_pred             HHHHHHhchhhCCcEEEEEec-hHhCCHHHHHHHHH-----HH---H--hCCCcEEEEEECCChHhhhHHHHhhhhhccc
Confidence            22222221 223578899993 33322233333321     00   0  1345677888888888888888999999998


Q ss_pred             cccC
Q psy4734         335 ELKC  338 (367)
Q Consensus       335 ~~~~  338 (367)
                      .+-.
T Consensus       176 ~~Ls  179 (605)
T PRK05896        176 KKLN  179 (605)
T ss_pred             CCCC
Confidence            7653

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

Probab=96.52  E-value=0.0045  Score=60.90  Aligned_cols=122  Identities=22%  Similarity=0.268  Sum_probs=68.4

Q ss_pred             HHHHHh--hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccch
Q psy4734         175 LKKIFE--VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGI  252 (367)
Q Consensus       175 l~k~~~--~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGi  252 (367)
                      +..+++  ..++.+|.||||+||||+.++++.+.+              .....+|+-.-+++++               
T Consensus        39 lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~--------------~~f~~~sAv~~gvkdl---------------   89 (436)
T COG2256          39 LRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTN--------------AAFEALSAVTSGVKDL---------------   89 (436)
T ss_pred             HHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhC--------------CceEEeccccccHHHH---------------
Confidence            444555  456788899999999999999887553              1222333332222222               


Q ss_pred             HHHHHHHHhcCCCCCc-eEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-CCccCcchhhcee
Q psy4734         253 LAKTFREMAVSTTPDR-KWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-LEFASPATVSRVG  330 (367)
Q Consensus       253 l~~~~r~~~~~~~~~~-~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-l~~asPatvsRcg  330 (367)
                       -.++.++......++ -.+++|      =|..+|-.-.|--+-.+-+|..|.+.-+      |+| --...||..|||-
T Consensus        90 -r~i~e~a~~~~~~gr~tiLflD------EIHRfnK~QQD~lLp~vE~G~iilIGAT------TENPsF~ln~ALlSR~~  156 (436)
T COG2256          90 -REIIEEARKNRLLGRRTILFLD------EIHRFNKAQQDALLPHVENGTIILIGAT------TENPSFELNPALLSRAR  156 (436)
T ss_pred             -HHHHHHHHHHHhcCCceEEEEe------hhhhcChhhhhhhhhhhcCCeEEEEecc------CCCCCeeecHHHhhhhh
Confidence             222333322222244 445556      3445665444443444556666555432      122 2235799999999


Q ss_pred             eEEecccC
Q psy4734         331 MIYFELKC  338 (367)
Q Consensus       331 ~v~~~~~~  338 (367)
                      +..+.|-.
T Consensus       157 vf~lk~L~  164 (436)
T COG2256         157 VFELKPLS  164 (436)
T ss_pred             eeeeecCC
Confidence            99998753

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=96.50  E-value=0.0022  Score=57.06  Aligned_cols=150  Identities=15%  Similarity=0.124  Sum_probs=78.7

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc---cccccceecccccccccchHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT---MGQLYGEFDSASHEWRDGILAKTFR  258 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t---~~~l~G~~d~~~~~W~dGil~~~~r  258 (367)
                      .|.++|.||+|+|||++.+.+++.+.......     +.+.. ...+...+.   ..++. .+++......-..+-.+++
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~-----~~~c~-~~~~c~~~~~~~~~d~~-~~~~~~~~~~~~~i~~i~~   86 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGG-----GEPCG-ECPSCRLIEAGNHPDLH-RLEPEGQSIKVDQVRELVE   86 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCC-----CCCCC-CCHHHHHHHcCCCCcEE-EeccccCcCCHHHHHHHHH
Confidence            36688999999999999999988774321000     00000 000000000   00010 1111111110011222344


Q ss_pred             HHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEeccc
Q psy4734         259 EMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       259 ~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~  337 (367)
                      .+... ....++-+|+|. +|..--+..|.+|.     .|   |.  .+++..+||-+.+.....|+..|||-++.+.+-
T Consensus        87 ~~~~~~~~~~~kviiide-~~~l~~~~~~~Ll~-----~l---e~--~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~  155 (188)
T TIGR00678        87 FLSRTPQESGRRVVIIED-AERMNEAAANALLK-----TL---EE--PPPNTLFILITPSPEKLLPTIRSRCQVLPFPPL  155 (188)
T ss_pred             HHccCcccCCeEEEEEec-hhhhCHHHHHHHHH-----Hh---cC--CCCCeEEEEEECChHhChHHHHhhcEEeeCCCC
Confidence            43332 235678999994 44333333344331     01   21  355777888888888899999999999998875


Q ss_pred             CCchHHHHHHHHHHh
Q psy4734         338 CISWTTFFLSYQNEL  352 (367)
Q Consensus       338 ~~~~~~~~~swl~~~  352 (367)
                      .   ..-+..|+...
T Consensus       156 ~---~~~~~~~l~~~  167 (188)
T TIGR00678       156 S---EEALLQWLIRQ  167 (188)
T ss_pred             C---HHHHHHHHHHc
Confidence            4   23357777665

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.47  E-value=0.021  Score=56.34  Aligned_cols=125  Identities=18%  Similarity=0.224  Sum_probs=67.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccc--hHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDG--ILAKTFREM  260 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dG--il~~~~r~~  260 (367)
                      +.++|.||+|+|||++.+.+++.+..-.....  .+...+.+..+              +..   -..|  -+..++.++
T Consensus        40 ~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~--~~~~~~~~~~l--------------~~~---~~~~~~~i~~l~~~~  100 (367)
T PRK14970         40 QALLFCGPRGVGKTTCARILARKINQPGYDDP--NEDFSFNIFEL--------------DAA---SNNSVDDIRNLIDQV  100 (367)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC--CCCCCcceEEe--------------ccc---cCCCHHHHHHHHHHH
Confidence            57889999999999999998776643110000  00001111111              110   0111  233334433


Q ss_pred             hcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEeccc
Q psy4734         261 AVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       261 ~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~  337 (367)
                      ... ...+++-+++|. +|..-.+.++.++.     ++   |  ..+++..+|+.+++.....|+..|||..+.+.+-
T Consensus       101 ~~~p~~~~~kiviIDE-~~~l~~~~~~~ll~-----~l---e--~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~  167 (367)
T PRK14970        101 RIPPQTGKYKIYIIDE-VHMLSSAAFNAFLK-----TL---E--EPPAHAIFILATTEKHKIIPTILSRCQIFDFKRI  167 (367)
T ss_pred             hhccccCCcEEEEEeC-hhhcCHHHHHHHHH-----HH---h--CCCCceEEEEEeCCcccCCHHHHhcceeEecCCc
Confidence            222 224568899993 33222223333321     01   0  0244567888888888888999999999888764

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=96.47  E-value=0.0034  Score=63.79  Aligned_cols=136  Identities=19%  Similarity=0.217  Sum_probs=71.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcccc--ccceecccccccccchHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQ--LYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~--l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      .|.++|.||+|+|||++.+.+++++.-......    ...... ..+.+.+..+.  -+-.++..   ..-|+  ..+|+
T Consensus        39 ~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~----~~~c~~-c~~C~~i~~~~~~d~~~i~g~---~~~gi--d~ir~  108 (451)
T PRK06305         39 AHAYLFSGIRGTGKTTLARIFAKALNCQNPTED----QEPCNQ-CASCKEISSGTSLDVLEIDGA---SHRGI--EDIRQ  108 (451)
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccC----CCCCcc-cHHHHHHhcCCCCceEEeecc---ccCCH--HHHHH
Confidence            467889999999999999999998843211000    000000 00000000000  00011111   01111  12222


Q ss_pred             Hhc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEe
Q psy4734         260 MAV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYF  334 (367)
Q Consensus       260 ~~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~  334 (367)
                      ...     .....++.+|+|. +|..--+..|.++.     ++   |  ..++++.+||-+++.....|+..|||..+.+
T Consensus       109 i~~~l~~~~~~~~~kvvIIde-ad~lt~~~~n~LLk-----~l---E--ep~~~~~~Il~t~~~~kl~~tI~sRc~~v~f  177 (451)
T PRK06305        109 INETVLFTPSKSRYKIYIIDE-VHMLTKEAFNSLLK-----TL---E--EPPQHVKFFLATTEIHKIPGTILSRCQKMHL  177 (451)
T ss_pred             HHHHHHhhhhcCCCEEEEEec-HHhhCHHHHHHHHH-----Hh---h--cCCCCceEEEEeCChHhcchHHHHhceEEeC
Confidence            211     1235679999994 34333344444321     00   1  1345777888888888888999999999999


Q ss_pred             cccC
Q psy4734         335 ELKC  338 (367)
Q Consensus       335 ~~~~  338 (367)
                      .+-.
T Consensus       178 ~~l~  181 (451)
T PRK06305        178 KRIP  181 (451)
T ss_pred             CCCC
Confidence            7653

>CHL00181 cbbX CbbX; Provisional

Probab=96.46  E-value=0.0028  Score=60.60  Aligned_cols=139  Identities=17%  Similarity=0.175  Sum_probs=72.0

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcCC
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVST  264 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~~  264 (367)
                      ++|.||||+|||++.+.++..+..+.-...     .+  ...++     ..++.|.+-..+.    .-...+++++    
T Consensus        62 ill~G~pGtGKT~lAr~la~~~~~~g~~~~-----~~--~~~v~-----~~~l~~~~~g~~~----~~~~~~l~~a----  121 (287)
T CHL00181         62 MSFTGSPGTGKTTVALKMADILYKLGYIKK-----GH--LLTVT-----RDDLVGQYIGHTA----PKTKEVLKKA----  121 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCCC-----Cc--eEEec-----HHHHHHHHhccch----HHHHHHHHHc----
Confidence            788999999999999999887654421110     01  12222     2233333211110    0111233322    


Q ss_pred             CCCceEEEEcCC-----------CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecC-----CCCccCcchhhc
Q psy4734         265 TPDRKWIMFDGP-----------IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECE-----NLEFASPATVSR  328 (367)
Q Consensus       265 ~~~~~wivfDG~-----------~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~-----~l~~asPatvsR  328 (367)
                        ...-+++|--           ....-++.|..++++..             +++.+|+-..     .+....|+..||
T Consensus       122 --~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~-------------~~~~vI~ag~~~~~~~~~~~np~L~sR  186 (287)
T CHL00181        122 --MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQR-------------DDLVVIFAGYKDRMDKFYESNPGLSSR  186 (287)
T ss_pred             --cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCC-------------CCEEEEEeCCcHHHHHHHhcCHHHHHh
Confidence              1246677711           22344556666666532             3344555442     233456999999


Q ss_pred             ee-eEEecccCC-chHHHHHHHHHHhhhhhhH
Q psy4734         329 VG-MIYFELKCI-SWTTFFLSYQNELKEKLNE  358 (367)
Q Consensus       329 cg-~v~~~~~~~-~~~~~~~swl~~~~~~~~~  358 (367)
                      |. .|++.+-.. .-..++..+++.....+.+
T Consensus       187 ~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~  218 (287)
T CHL00181        187 IANHVDFPDYTPEELLQIAKIMLEEQQYQLTP  218 (287)
T ss_pred             CCceEEcCCcCHHHHHHHHHHHHHHhcCCCCh
Confidence            98 466665432 2455666666654433333

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=96.43  E-value=0.01  Score=58.65  Aligned_cols=157  Identities=15%  Similarity=0.118  Sum_probs=82.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCC--------Cccccccce---ecccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS--------ITMGQLYGE---FDSASHEWR  249 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka--------~t~~~l~G~---~d~~~~~W~  249 (367)
                      ..|.++|.||+|.||+++...+++++.--...... .-........+.+.+        -++.+++--   .+..+....
T Consensus        40 l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~-~~~~~~~~l~~~~~c~~c~~i~~~~HPDl~~i~~~~~~~~~~~~  118 (365)
T PRK07471         40 LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGD-GAVPPPTSLAIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLR  118 (365)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCC-ccccccccccCCCCChHHHHHHccCCCCeEEEeccccccccccc
Confidence            35789999999999999999999887421100000 000000000000110        111222111   011111122


Q ss_pred             cchHHHHHHHHhc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcc
Q psy4734         250 DGILAKTFREMAV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPA  324 (367)
Q Consensus       250 dGil~~~~r~~~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPa  324 (367)
                      ..|-..-+|+...     .....++.+|+| ++|..-.+..|.+|.   +|     |  ..+++..||+=+++....-|.
T Consensus       119 ~~I~VdqiR~l~~~~~~~~~~~~~kVviID-ead~m~~~aanaLLK---~L-----E--epp~~~~~IL~t~~~~~llpt  187 (365)
T PRK07471        119 TVITVDEVRELISFFGLTAAEGGWRVVIVD-TADEMNANAANALLK---VL-----E--EPPARSLFLLVSHAPARLLPT  187 (365)
T ss_pred             ccccHHHHHHHHHHhCcCcccCCCEEEEEe-chHhcCHHHHHHHHH---HH-----h--cCCCCeEEEEEECCchhchHH
Confidence            2333334555432     223467889999 466555666676651   11     1  123456677777777777788


Q ss_pred             hhhceeeEEecccCCchHHHHHHHHHHh
Q psy4734         325 TVSRVGMIYFELKCISWTTFFLSYQNEL  352 (367)
Q Consensus       325 tvsRcg~v~~~~~~~~~~~~~~swl~~~  352 (367)
                      ..|||-.+.+.+-.-   .-+..|+...
T Consensus       188 i~SRc~~i~l~~l~~---~~i~~~L~~~  212 (365)
T PRK07471        188 IRSRCRKLRLRPLAP---EDVIDALAAA  212 (365)
T ss_pred             hhccceEEECCCCCH---HHHHHHHHHh
Confidence            899999999987542   4556676553

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.37  E-value=0.041  Score=52.65  Aligned_cols=117  Identities=20%  Similarity=0.237  Sum_probs=65.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS  263 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~  263 (367)
                      .++|.||+|+|||++.+.++..+..-.         ....+..+++...           .  .  ...+...+.+.+..
T Consensus        40 ~~ll~G~~G~GKt~~~~~l~~~l~~~~---------~~~~~i~~~~~~~-----------~--~--~~~~~~~i~~~~~~   95 (319)
T PRK00440         40 HLLFAGPPGTGKTTAALALARELYGED---------WRENFLELNASDE-----------R--G--IDVIRNKIKEFART   95 (319)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHcCCc---------cccceEEeccccc-----------c--c--hHHHHHHHHHHHhc
Confidence            378899999999999999887663110         0111122222110           0  0  01122233333221


Q ss_pred             ---CCCCceEEEEcCCCChH---hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEeccc
Q psy4734         264 ---TTPDRKWIMFDGPIDAV---WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       264 ---~~~~~~wivfDG~~d~~---wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~  337 (367)
                         .....+.+++|. +|..   ..+.|...++.             .+++.++||-++......++..+||.++.+.+-
T Consensus        96 ~~~~~~~~~vviiDe-~~~l~~~~~~~L~~~le~-------------~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l  161 (319)
T PRK00440         96 APVGGAPFKIIFLDE-ADNLTSDAQQALRRTMEM-------------YSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPL  161 (319)
T ss_pred             CCCCCCCceEEEEeC-cccCCHHHHHHHHHHHhc-------------CCCCCeEEEEeCCccccchhHHHHhheeeeCCC
Confidence               123578999994 3322   23334333322             234567888777777777888999999998764


Q ss_pred             C
Q psy4734         338 C  338 (367)
Q Consensus       338 ~  338 (367)
                      .
T Consensus       162 ~  162 (319)
T PRK00440        162 K  162 (319)
T ss_pred             C
Confidence            4

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.30  E-value=0.0066  Score=59.41  Aligned_cols=156  Identities=16%  Similarity=0.230  Sum_probs=91.0

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhh-c-c---------ccccceeEEEEeCCCCCccccccceecc------
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKK-S-A---------TMKEFKTGYKIINPKSITMGQLYGEFDS------  243 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~-~-~---------~~~~~~v~~~~inpka~t~~~l~G~~d~------  243 (367)
                      ..|+++|.||+|.||+++.+.+++++.--.... . +         -..+..-.++.+.|..... ...|.-|.      
T Consensus        20 l~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~-~~~~~~~~~~~~~~   98 (342)
T PRK06964         20 LPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAA-EAPGAADEAKEADA   98 (342)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccc-cccccccccccchh
Confidence            448899999999999999999999884321100 0 0         0111222344455542110 00010000      


Q ss_pred             -ccccc----ccchHHHHHHHHhc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEE
Q psy4734         244 -ASHEW----RDGILAKTFREMAV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIF  313 (367)
Q Consensus       244 -~~~~W----~dGil~~~~r~~~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~if  313 (367)
                       ..+..    ...+-..-+|+...     ......|-+|+| +.|..=.+.-|++|-   +|     |  ..|++..||+
T Consensus        99 ~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~-~ae~m~~~AaNaLLK---tL-----E--EPp~~t~fiL  167 (342)
T PRK06964         99 DEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLY-PAEALNVAAANALLK---TL-----E--EPPPGTVFLL  167 (342)
T ss_pred             hcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEe-chhhcCHHHHHHHHH---Hh-----c--CCCcCcEEEE
Confidence             00000    01122233343321     223567888888 777776777777651   11     2  3577888999


Q ss_pred             ecCCCCccCcchhhceeeEEecccCCchHHHHHHHHHH
Q psy4734         314 ECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNE  351 (367)
Q Consensus       314 E~~~l~~asPatvsRcg~v~~~~~~~~~~~~~~swl~~  351 (367)
                      -+++....=|..+|||-.+++.+-.   ..-+..||..
T Consensus       168 ~t~~~~~LLpTI~SRcq~i~~~~~~---~~~~~~~L~~  202 (342)
T PRK06964        168 VSARIDRLLPTILSRCRQFPMTVPA---PEAAAAWLAA  202 (342)
T ss_pred             EECChhhCcHHHHhcCEEEEecCCC---HHHHHHHHHH
Confidence            9999999999999999999998764   2566667754

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.29  E-value=0.0034  Score=62.77  Aligned_cols=72  Identities=17%  Similarity=0.142  Sum_probs=45.1

Q ss_pred             CCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccCCchHHHH
Q psy4734         266 PDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFF  345 (367)
Q Consensus       266 ~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~~~~~~~~  345 (367)
                      .+++-+|+|. +|..-.+..|.++.     .|   |  ..+++..|||-+++.....|+..|||.++.+.+-.   ..-+
T Consensus       126 ~~~kvvIIde-a~~l~~~~~~~LLk-----~L---E--ep~~~t~~Il~t~~~~kl~~tl~sR~~~v~f~~l~---~~ei  191 (397)
T PRK14955        126 GRYRVYIIDE-VHMLSIAAFNAFLK-----TL---E--EPPPHAIFIFATTELHKIPATIASRCQRFNFKRIP---LEEI  191 (397)
T ss_pred             CCeEEEEEeC-hhhCCHHHHHHHHH-----HH---h--cCCCCeEEEEEeCChHHhHHHHHHHHHHhhcCCCC---HHHH
Confidence            4568888984 33333333343321     01   1  24567778888888888889899999999987654   2334


Q ss_pred             HHHHHH
Q psy4734         346 LSYQNE  351 (367)
Q Consensus       346 ~swl~~  351 (367)
                      ..|+..
T Consensus       192 ~~~l~~  197 (397)
T PRK14955        192 QQQLQG  197 (397)
T ss_pred             HHHHHH
Confidence            455554

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=96.26  E-value=0.0044  Score=64.63  Aligned_cols=134  Identities=19%  Similarity=0.218  Sum_probs=74.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcccccc--ceecccccccccchHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLY--GEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~--G~~d~~~~~W~dGil~~~~r~  259 (367)
                      .|..+|.||+|.|||++.+.+++++.--....     ..+... .-+++.+..+.-+  -.+|..+   ..|  ..-+|+
T Consensus        38 ~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~-----~~pC~~-C~~C~~i~~~~~~dv~~idgas---~~~--vddIr~  106 (563)
T PRK06647         38 ANAYIFSGPRGVGKTSSARAFARCLNCVNGPT-----PMPCGE-CSSCKSIDNDNSLDVIEIDGAS---NTS--VQDVRQ  106 (563)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhhccccCCC-----CCCCcc-chHHHHHHcCCCCCeEEecCcc---cCC--HHHHHH
Confidence            45688999999999999999999885321100     000000 0011111111000  0112111   111  122333


Q ss_pred             Hh----c-CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEe
Q psy4734         260 MA----V-STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYF  334 (367)
Q Consensus       260 ~~----~-~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~  334 (367)
                      ..    . ....+.+-+|+|. ++..--+..|.+|.        .-|  ..|+++.|||-++++....|+..|||..+.+
T Consensus       107 l~e~~~~~p~~~~~KVvIIDE-a~~Ls~~a~naLLK--------~LE--epp~~~vfI~~tte~~kL~~tI~SRc~~~~f  175 (563)
T PRK06647        107 IKEEIMFPPASSRYRVYIIDE-VHMLSNSAFNALLK--------TIE--EPPPYIVFIFATTEVHKLPATIKSRCQHFNF  175 (563)
T ss_pred             HHHHHHhchhcCCCEEEEEEC-hhhcCHHHHHHHHH--------hhc--cCCCCEEEEEecCChHHhHHHHHHhceEEEe
Confidence            32    1 1235678899994 55444455555431        122  2567888999999998888899999999998


Q ss_pred             ccc
Q psy4734         335 ELK  337 (367)
Q Consensus       335 ~~~  337 (367)
                      .+-
T Consensus       176 ~~l  178 (563)
T PRK06647        176 RLL  178 (563)
T ss_pred             cCC
Confidence            864

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.24  E-value=0.011  Score=62.23  Aligned_cols=72  Identities=17%  Similarity=0.146  Sum_probs=45.6

Q ss_pred             CCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccCCchHHHH
Q psy4734         266 PDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFF  345 (367)
Q Consensus       266 ~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~~~~~~~~  345 (367)
                      ..++-+|+|. +|..-.+..|.+|.-     |   |  ..+++..|||-+++....-|+..|||-++.+.+-.-   .-+
T Consensus       126 ~~~KVvIIdE-ad~Lt~~a~naLLK~-----L---E--ePp~~tv~IL~t~~~~kLl~TI~SRc~~vef~~l~~---~ei  191 (620)
T PRK14954        126 GRYRVYIIDE-VHMLSTAAFNAFLKT-----L---E--EPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPL---DEI  191 (620)
T ss_pred             CCCEEEEEeC-hhhcCHHHHHHHHHH-----H---h--CCCCCeEEEEEeCChhhhhHHHHhhceEEecCCCCH---HHH
Confidence            4578899994 444333444444320     0   0  134566788888888888888899999999976542   335


Q ss_pred             HHHHHH
Q psy4734         346 LSYQNE  351 (367)
Q Consensus       346 ~swl~~  351 (367)
                      ..|+..
T Consensus       192 ~~~L~~  197 (620)
T PRK14954        192 QSQLQM  197 (620)
T ss_pred             HHHHHH
Confidence            556654

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.19  E-value=0.02  Score=55.90  Aligned_cols=141  Identities=13%  Similarity=0.154  Sum_probs=87.1

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhc----------cccccceeEEEEeCCCCCccccccceeccccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS----------ATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRD  250 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~----------~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~d  250 (367)
                      ..|..+|.||+|.||+++...+++++.=......          ....+..-.++.+.|..              .  ..
T Consensus        23 l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~--------------~--~~   86 (334)
T PRK07993         23 GHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEK--------------G--KS   86 (334)
T ss_pred             cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEeccc--------------c--cc
Confidence            4578999999999999999999988732110000          00011122233333321              0  00


Q ss_pred             chHHHHHHHHhc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcch
Q psy4734         251 GILAKTFREMAV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPAT  325 (367)
Q Consensus       251 Gil~~~~r~~~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPat  325 (367)
                      .|-..-+|+...     ......|.+|+| +.|..=.+.-|++|-   +|     |  .-|++.-||.=+++....-|..
T Consensus        87 ~I~idqiR~l~~~~~~~~~~g~~kV~iI~-~ae~m~~~AaNaLLK---tL-----E--EPp~~t~fiL~t~~~~~lLpTI  155 (334)
T PRK07993         87 SLGVDAVREVTEKLYEHARLGGAKVVWLP-DAALLTDAAANALLK---TL-----E--EPPENTWFFLACREPARLLATL  155 (334)
T ss_pred             cCCHHHHHHHHHHHhhccccCCceEEEEc-chHhhCHHHHHHHHH---Hh-----c--CCCCCeEEEEEECChhhChHHH
Confidence            122223444322     234568999999 666666667777651   11     1  2366777888899999999988


Q ss_pred             hhceeeEEecccCCchHHHHHHHHHH
Q psy4734         326 VSRVGMIYFELKCISWTTFFLSYQNE  351 (367)
Q Consensus       326 vsRcg~v~~~~~~~~~~~~~~swl~~  351 (367)
                      +|||-.+++.+-.   ...+..||..
T Consensus       156 rSRCq~~~~~~~~---~~~~~~~L~~  178 (334)
T PRK07993        156 RSRCRLHYLAPPP---EQYALTWLSR  178 (334)
T ss_pred             HhccccccCCCCC---HHHHHHHHHH
Confidence            9999999998754   3677778854

>PRK04195 replication factor C large subunit; Provisional

Probab=96.12  E-value=0.041  Score=56.47  Aligned_cols=112  Identities=19%  Similarity=0.187  Sum_probs=64.4

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      .+.+++.||+|+|||++++.+++.++              ..+..+|+....               ....+..++..+.
T Consensus        39 ~~~lLL~GppG~GKTtla~ala~el~--------------~~~ielnasd~r---------------~~~~i~~~i~~~~   89 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHALANDYG--------------WEVIELNASDQR---------------TADVIERVAGEAA   89 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcC--------------CCEEEEcccccc---------------cHHHHHHHHHHhh
Confidence            45688999999999999999877652              112234443211               0012333333332


Q ss_pred             cCC---CCCceEEEEcCCCC-------hHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCc-chhhcee
Q psy4734         262 VST---TPDRKWIMFDGPID-------AVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASP-ATVSRVG  330 (367)
Q Consensus       262 ~~~---~~~~~wivfDG~~d-------~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asP-atvsRcg  330 (367)
                      ...   +...+-||+|. +|       ...++.|..+++.               .+..+|+-+.+.....| ...+||.
T Consensus        90 ~~~sl~~~~~kvIiIDE-aD~L~~~~d~~~~~aL~~~l~~---------------~~~~iIli~n~~~~~~~k~Lrsr~~  153 (482)
T PRK04195         90 TSGSLFGARRKLILLDE-VDGIHGNEDRGGARAILELIKK---------------AKQPIILTANDPYDPSLRELRNACL  153 (482)
T ss_pred             ccCcccCCCCeEEEEec-CcccccccchhHHHHHHHHHHc---------------CCCCEEEeccCccccchhhHhccce
Confidence            221   13578899982 32       2344555444432               22345665666666666 5678999


Q ss_pred             eEEecccC
Q psy4734         331 MIYFELKC  338 (367)
Q Consensus       331 ~v~~~~~~  338 (367)
                      .|.+.+-.
T Consensus       154 ~I~f~~~~  161 (482)
T PRK04195        154 MIEFKRLS  161 (482)
T ss_pred             EEEecCCC
Confidence            99998654

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.11  E-value=0.012  Score=62.05  Aligned_cols=135  Identities=19%  Similarity=0.215  Sum_probs=72.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC---ccccccceecccccccccchHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI---TMGQLYGEFDSASHEWRDGILAKTFR  258 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~---t~~~l~G~~d~~~~~W~dGil~~~~r  258 (367)
                      .|.++|.||+|+|||++.+.+++.+.-......   ........ =.++.+   +..+++ .++..   ...|+  .-+|
T Consensus        38 ~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~---~~~~Cg~C-~~C~~i~~g~h~D~~-ei~~~---~~~~v--d~IR  107 (620)
T PRK14948         38 APAYLFTGPRGTGKTSSARILAKSLNCLNSDKP---TPEPCGKC-ELCRAIAAGNALDVI-EIDAA---SNTGV--DNIR  107 (620)
T ss_pred             CceEEEECCCCCChHHHHHHHHHHhcCCCcCCC---CCCCCccc-HHHHHHhcCCCccEE-EEecc---ccCCH--HHHH
Confidence            367899999999999999999998853211000   00000000 000000   000111 11221   12222  2334


Q ss_pred             HHhc----C-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEE
Q psy4734         259 EMAV----S-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIY  333 (367)
Q Consensus       259 ~~~~----~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~  333 (367)
                      +...    . .....+-+|+|. +|..-.+..|.+|.        .=|  ..++++.||+-+.+....-|+..|||..+.
T Consensus       108 eii~~a~~~p~~~~~KViIIDE-ad~Lt~~a~naLLK--------~LE--ePp~~tvfIL~t~~~~~llpTIrSRc~~~~  176 (620)
T PRK14948        108 ELIERAQFAPVQARWKVYVIDE-CHMLSTAAFNALLK--------TLE--EPPPRVVFVLATTDPQRVLPTIISRCQRFD  176 (620)
T ss_pred             HHHHHHhhChhcCCceEEEEEC-ccccCHHHHHHHHH--------HHh--cCCcCeEEEEEeCChhhhhHHHHhheeEEE
Confidence            3321    1 124568999993 55444445555431        111  234567788888888888899999999998


Q ss_pred             eccc
Q psy4734         334 FELK  337 (367)
Q Consensus       334 ~~~~  337 (367)
                      +.+-
T Consensus       177 f~~l  180 (620)
T PRK14948        177 FRRI  180 (620)
T ss_pred             ecCC
Confidence            8744

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=96.11  E-value=0.014  Score=56.86  Aligned_cols=127  Identities=16%  Similarity=0.184  Sum_probs=68.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccc----------cccceeEEEEeCCCCCccccccceecccccccccc-
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSAT----------MKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDG-  251 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~----------~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dG-  251 (367)
                      |.++|.||+|+|||++.+.+++++.--.......          ..+....+..+++..                 ..+ 
T Consensus        37 ~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~~~~~~~-----------------~~~~   99 (355)
T TIGR02397        37 HAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVIEIDAAS-----------------NNGV   99 (355)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEeeccc-----------------cCCH
Confidence            5678999999999999999998874211000000          000000111122210                 011 


Q ss_pred             -hHHHHHHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhce
Q psy4734         252 -ILAKTFREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRV  329 (367)
Q Consensus       252 -il~~~~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRc  329 (367)
                       -+..++..+... ...+++.+|+|. +|..--+..|.++.     .+   |  ..++++.+||-+++.....|+..|||
T Consensus       100 ~~~~~l~~~~~~~p~~~~~~vviide-a~~l~~~~~~~Ll~-----~l---e--~~~~~~~lIl~~~~~~~l~~~l~sr~  168 (355)
T TIGR02397       100 DDIREILDNVKYAPSSGKYKVYIIDE-VHMLSKSAFNALLK-----TL---E--EPPEHVVFILATTEPHKIPATILSRC  168 (355)
T ss_pred             HHHHHHHHHHhcCcccCCceEEEEeC-hhhcCHHHHHHHHH-----HH---h--CCccceeEEEEeCCHHHHHHHHHhhe
Confidence             122334333322 234578899994 33222233333321     01   1  12567778888888888888999999


Q ss_pred             eeEEeccc
Q psy4734         330 GMIYFELK  337 (367)
Q Consensus       330 g~v~~~~~  337 (367)
                      -.+.+.+-
T Consensus       169 ~~~~~~~~  176 (355)
T TIGR02397       169 QRFDFKRI  176 (355)
T ss_pred             eEEEcCCC
Confidence            98888643

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.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=96.09  E-value=0.01  Score=57.82  Aligned_cols=129  Identities=19%  Similarity=0.187  Sum_probs=74.4

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhcc----------ccccceeEEEEeCCCCCccccccceeccccccccc
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSA----------TMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRD  250 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~----------~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~d  250 (367)
                      ..|..+|.||+|+||+++.+.+++++.--......          ...+..-.++.+.|.              ...   
T Consensus        27 l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~~~--------------~~~---   89 (329)
T PRK08058         27 LSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVAPD--------------GQS---   89 (329)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEeccc--------------ccc---
Confidence            44678999999999999999998887421100000          000000011112221              100   


Q ss_pred             chHHHHHHHHhc-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcch
Q psy4734         251 GILAKTFREMAV-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPAT  325 (367)
Q Consensus       251 Gil~~~~r~~~~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPat  325 (367)
                       +-..-+|+...     .....+|.+|+|. +|..-.+..|.+|.-        =|  ..|+++.||+-+++....-|+.
T Consensus        90 -i~id~ir~l~~~~~~~~~~~~~kvviI~~-a~~~~~~a~NaLLK~--------LE--EPp~~~~~Il~t~~~~~ll~TI  157 (329)
T PRK08058         90 -IKKDQIRYLKEEFSKSGVESNKKVYIIEH-ADKMTASAANSLLKF--------LE--EPSGGTTAILLTENKHQILPTI  157 (329)
T ss_pred             -CCHHHHHHHHHHHhhCCcccCceEEEeeh-HhhhCHHHHHHHHHH--------hc--CCCCCceEEEEeCChHhCcHHH
Confidence             11122333321     1234679999995 444444444544310        11  2567888999888999999999


Q ss_pred             hhceeeEEecccC
Q psy4734         326 VSRVGMIYFELKC  338 (367)
Q Consensus       326 vsRcg~v~~~~~~  338 (367)
                      .|||-.+++.+-.
T Consensus       158 rSRc~~i~~~~~~  170 (329)
T PRK08058        158 LSRCQVVEFRPLP  170 (329)
T ss_pred             HhhceeeeCCCCC
Confidence            9999999998653

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.06  E-value=0.012  Score=64.41  Aligned_cols=148  Identities=20%  Similarity=0.250  Sum_probs=81.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCC----CCCccccccceecccccccc-cchHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINP----KSITMGQLYGEFDSASHEWR-DGILAKTFR  258 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inp----ka~t~~~l~G~~d~~~~~W~-dGil~~~~r  258 (367)
                      .++|+||+|+|||++.+.|+..+..-         +.++.  .++.    ...+...|+|.. |...... .|.++..+|
T Consensus       600 ~~Lf~Gp~G~GKT~lA~aLa~~l~~~---------~~~~i--~id~se~~~~~~~~~LiG~~-pgy~g~~~~g~l~~~v~  667 (857)
T PRK10865        600 SFLFLGPTGVGKTELCKALANFMFDS---------DDAMV--RIDMSEFMEKHSVSRLVGAP-PGYVGYEEGGYLTEAVR  667 (857)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhhcC---------CCcEE--EEEhHHhhhhhhHHHHhCCC-CcccccchhHHHHHHHH
Confidence            46788999999999999998766311         11121  2222    223455677742 1111122 356666665


Q ss_pred             HHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC------------------
Q psy4734         259 EMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL------------------  318 (367)
Q Consensus       259 ~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l------------------  318 (367)
                      ..      ...-++||  +..++.-...|-.++|+. .++-+.|..+.+.+.+ +|+ |+|+                  
T Consensus       668 ~~------p~~vLllDEieka~~~v~~~Ll~ile~g-~l~d~~gr~vd~rn~i-iI~-TSN~g~~~~~~~~~~~~~~~~~  738 (857)
T PRK10865        668 RR------PYSVILLDEVEKAHPDVFNILLQVLDDG-RLTDGQGRTVDFRNTV-VIM-TSNLGSDLIQERFGELDYAHMK  738 (857)
T ss_pred             hC------CCCeEEEeehhhCCHHHHHHHHHHHhhC-ceecCCceEEeecccE-EEE-eCCcchHHHHHhccccchHHHH
Confidence            32      23578888  333455445555566554 3444566666665432 332 5554                  


Q ss_pred             --------CccCcchhhce-eeEEecccCC-chHHHHHHHHHHh
Q psy4734         319 --------EFASPATVSRV-GMIYFELKCI-SWTTFFLSYQNEL  352 (367)
Q Consensus       319 --------~~asPatvsRc-g~v~~~~~~~-~~~~~~~swl~~~  352 (367)
                              ..-.|+.++|+ .++.+.|-.- .-..++.-.++.+
T Consensus       739 ~~~~~~~~~~f~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l  782 (857)
T PRK10865        739 ELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLQRL  782 (857)
T ss_pred             HHHHHHHcccccHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHH
Confidence                    23468999999 6666665432 2344445555443

>KOG0989|consensus

Probab=96.05  E-value=0.0027  Score=60.30  Aligned_cols=57  Identities=25%  Similarity=0.301  Sum_probs=42.3

Q ss_pred             ceEEEEcCCCChHhhhhhhh---ccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         268 RKWIMFDGPIDAVWIENMNT---VLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       268 ~~wivfDG~~d~~wie~lns---vlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                      .|.|||| ++|..--+.=++   ++++             .+.+.+|++=++.++.+-+-.+|||.=..+.+..
T Consensus       130 fKiiIlD-Ecdsmtsdaq~aLrr~mE~-------------~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~  189 (346)
T KOG0989|consen  130 FKIIILD-ECDSMTSDAQAALRRTMED-------------FSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLK  189 (346)
T ss_pred             ceEEEEe-chhhhhHHHHHHHHHHHhc-------------cccceEEEEEcCChhhCChHHHhhHHHhcCCCcc
Confidence            4999999 666553333222   2222             3567889999999999999999999999988654

>PRK06893 DNA replication initiation factor; Validated

Probab=96.05  E-value=0.01  Score=54.71  Aligned_cols=24  Identities=13%  Similarity=0.225  Sum_probs=20.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+++.||+|+|||++.+.++..+.
T Consensus        41 ~l~l~G~~G~GKThL~~ai~~~~~   64 (229)
T PRK06893         41 FFYIWGGKSSGKSHLLKAVSNHYL   64 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH
Confidence            467889999999999998887653

>PRK07261 topology modulation protein; Provisional

Probab=96.02  E-value=0.011  Score=51.86  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=18.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||+.+.|++.+
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            5788999999999998887554

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.99  E-value=0.0056  Score=59.69  Aligned_cols=142  Identities=21%  Similarity=0.292  Sum_probs=81.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhcc---------ccc-----cceeEEE----EeCCCCCccccccceec
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSA---------TMK-----EFKTGYK----IINPKSITMGQLYGEFD  242 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~---------~~~-----~~~v~~~----~inpka~t~~~l~G~~d  242 (367)
                      ..+++++.|++|+|||++.+.++..+..+......         +..     ...+...    +-=|-..|.+.|+|.+|
T Consensus        28 ~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d  107 (334)
T PRK13407         28 GIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEWAHVSSTTMIERPTPVVDLPLGVTEDRVVGALD  107 (334)
T ss_pred             CCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCcccccccCCcccccCCccccCCCCCCcceeecchh
Confidence            34779999999999999999999988432211100         000     0000000    01355677888999876


Q ss_pred             cc----cc--ccccchHHHHHHHHhcCCCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEe
Q psy4734         243 SA----SH--EWRDGILAKTFREMAVSTTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFE  314 (367)
Q Consensus       243 ~~----~~--~W~dGil~~~~r~~~~~~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE  314 (367)
                      ..    ++  .++.|.+..          .+.--+++|.  ..++.-.+.|-.+|++.....-..|...+.+..+.++ -
T Consensus       108 ~~~~l~~g~~~~~~G~l~~----------A~~GiL~lDEInrl~~~~q~~Lle~mee~~v~v~r~G~~~~~p~rfivi-A  176 (334)
T PRK13407        108 IERALTRGEKAFEPGLLAR----------ANRGYLYIDEVNLLEDHIVDLLLDVAQSGENVVEREGLSIRHPARFVLV-G  176 (334)
T ss_pred             hhhhhhcCCeeecCCceEE----------cCCCeEEecChHhCCHHHHHHHHHHHHcCCeEEEECCeEEecCCCEEEE-e
Confidence            53    12  355555421          1123577772  2455555666666666654444556666777665444 4


Q ss_pred             cCCC-C-ccCcchhhceeeEE
Q psy4734         315 CENL-E-FASPATVSRVGMIY  333 (367)
Q Consensus       315 ~~~l-~-~asPatvsRcg~v~  333 (367)
                      +.+. . ...|+...|+++..
T Consensus       177 t~NP~e~~l~~aLldRF~~~v  197 (334)
T PRK13407        177 SGNPEEGELRPQLLDRFGLSV  197 (334)
T ss_pred             cCCcccCCCCHHHHhhcceEE
Confidence            5553 2 36779999998643

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=95.96  E-value=0.015  Score=55.47  Aligned_cols=130  Identities=13%  Similarity=0.152  Sum_probs=78.5

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhc--cccccceeEEEEeCCCCCccccccceecccccccccchHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS--ATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFR  258 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~--~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r  258 (367)
                      ..|..+|.||+|+||+++...++..+.-......  .-..+....++.+.|..-+                ..+-..-+|
T Consensus        18 l~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~----------------~~I~idqiR   81 (290)
T PRK05917         18 VPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKG----------------RLHSIETPR   81 (290)
T ss_pred             cCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCC----------------CcCcHHHHH
Confidence            4688999999999999999999988742110000  0000111223333332110                001111223


Q ss_pred             HH----hc-CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEE
Q psy4734         259 EM----AV-STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIY  333 (367)
Q Consensus       259 ~~----~~-~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~  333 (367)
                      +.    .. ......|.+|+| +.|..-.+.-|++|-   +|     |  ..|++..||+-+++....-|...|||-.++
T Consensus        82 ~l~~~~~~~p~e~~~kv~ii~-~ad~mt~~AaNaLLK---~L-----E--EPp~~~~fiL~~~~~~~ll~TI~SRcq~~~  150 (290)
T PRK05917         82 AIKKQIWIHPYESPYKIYIIH-EADRMTLDAISAFLK---VL-----E--DPPQHGVIILTSAKPQRLPPTIRSRSLSIH  150 (290)
T ss_pred             HHHHHHhhCccCCCceEEEEe-chhhcCHHHHHHHHH---Hh-----h--cCCCCeEEEEEeCChhhCcHHHHhcceEEE
Confidence            32    22 223567888998 666666677777651   11     1  246788899999999999998899999999


Q ss_pred             eccc
Q psy4734         334 FELK  337 (367)
Q Consensus       334 ~~~~  337 (367)
                      +.+.
T Consensus       151 ~~~~  154 (290)
T PRK05917        151 IPME  154 (290)
T ss_pred             ccch
Confidence            9864

>smart00763 AAA_PrkA PrkA AAA domain

Probab=95.93  E-value=0.009  Score=58.56  Aligned_cols=29  Identities=24%  Similarity=0.411  Sum_probs=25.7

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIA  210 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~  210 (367)
                      +..+.|.||||+||||+.+.|+..+....
T Consensus        78 r~il~L~GPPGsGKStla~~La~~l~~ys  106 (361)
T smart00763       78 KQILYLLGPVGGGKSSLVECLKRGLEEYS  106 (361)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhhc
Confidence            45578899999999999999999998864

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

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.90  E-value=0.01  Score=60.96  Aligned_cols=147  Identities=22%  Similarity=0.237  Sum_probs=78.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcc---ccccceecccccccccchH-HHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITM---GQLYGEFDSASHEWRDGIL-AKTF  257 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~---~~l~G~~d~~~~~W~dGil-~~~~  257 (367)
                      .|..+|.||+|+||||+.+.+++++.-.....     ..++.. ..|+..+..   .+++ .+|..+.   .|+= .+.+
T Consensus        38 ~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~-----~~pc~~-c~nc~~i~~g~~~d~~-eidaas~---~gvd~ir~I  107 (486)
T PRK14953         38 SHAYIFAGPRGTGKTTIARILAKVLNCLNPQE-----GEPCGK-CENCVEIDKGSFPDLI-EIDAASN---RGIDDIRAL  107 (486)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCcCCCC-----CCCCCc-cHHHHHHhcCCCCcEE-EEeCccC---CCHHHHHHH
Confidence            35678899999999999999999885321110     001110 011111110   1111 1232211   1211 1222


Q ss_pred             HHHhcC--CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEec
Q psy4734         258 REMAVS--TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE  335 (367)
Q Consensus       258 r~~~~~--~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~  335 (367)
                      ++.+..  ....++-+|+|- +|....+..|.++.-     |.     ..|++..+|+-++++....|+..|||..+.+.
T Consensus       108 ~~~~~~~P~~~~~KVvIIDE-ad~Lt~~a~naLLk~-----LE-----epp~~~v~Il~tt~~~kl~~tI~SRc~~i~f~  176 (486)
T PRK14953        108 RDAVSYTPIKGKYKVYIIDE-AHMLTKEAFNALLKT-----LE-----EPPPRTIFILCTTEYDKIPPTILSRCQRFIFS  176 (486)
T ss_pred             HHHHHhCcccCCeeEEEEEC-hhhcCHHHHHHHHHH-----Hh-----cCCCCeEEEEEECCHHHHHHHHHHhceEEEcC
Confidence            222222  234578999993 554444555554311     11     12567778888888888877788999998887


Q ss_pred             ccCCchHHHHHHHHHHh
Q psy4734         336 LKCISWTTFFLSYQNEL  352 (367)
Q Consensus       336 ~~~~~~~~~~~swl~~~  352 (367)
                      +-.   ..-+..|+..+
T Consensus       177 ~ls---~~el~~~L~~i  190 (486)
T PRK14953        177 KPT---KEQIKEYLKRI  190 (486)
T ss_pred             CCC---HHHHHHHHHHH
Confidence            543   23345566543

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.88  E-value=0.046  Score=57.46  Aligned_cols=134  Identities=20%  Similarity=0.160  Sum_probs=70.4

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEE-----EeCCCCCccccccceecccccccccchH-HH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYK-----IINPKSITMGQLYGEFDSASHEWRDGIL-AK  255 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~-----~inpka~t~~~l~G~~d~~~~~W~dGil-~~  255 (367)
                      .|.++|.||+|+||||+.+.+++++.-.....     +.+....     +.+-...++-    .+|..+   ..|+= .+
T Consensus        38 ~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~-----~~pCg~C~sC~~i~~g~hpDv~----eId~a~---~~~Id~iR  105 (624)
T PRK14959         38 APAYLFSGTRGVGKTTIARIFAKALNCETAPT-----GEPCNTCEQCRKVTQGMHVDVV----EIDGAS---NRGIDDAK  105 (624)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhccccCCCC-----CCCCcccHHHHHHhcCCCCceE----EEeccc---ccCHHHHH
Confidence            46788999999999999999999885211000     0000000     0000000011    112111   11220 01


Q ss_pred             HHHHHhc--CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEE
Q psy4734         256 TFREMAV--STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIY  333 (367)
Q Consensus       256 ~~r~~~~--~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~  333 (367)
                      .+++...  ......+.||+| ++|..-.+..|.+|.-        -|  ..++++.|||-+++.....+...|||-.+.
T Consensus       106 ~L~~~~~~~p~~g~~kVIIID-Ead~Lt~~a~naLLk~--------LE--EP~~~~ifILaTt~~~kll~TI~SRcq~i~  174 (624)
T PRK14959        106 RLKEAIGYAPMEGRYKVFIID-EAHMLTREAFNALLKT--------LE--EPPARVTFVLATTEPHKFPVTIVSRCQHFT  174 (624)
T ss_pred             HHHHHHHhhhhcCCceEEEEE-ChHhCCHHHHHHHHHH--------hh--ccCCCEEEEEecCChhhhhHHHHhhhhccc
Confidence            1222222  123457899999 4454444445554311        01  023567788888887777777789999998


Q ss_pred             ecccC
Q psy4734         334 FELKC  338 (367)
Q Consensus       334 ~~~~~  338 (367)
                      +.+-.
T Consensus       175 F~pLs  179 (624)
T PRK14959        175 FTRLS  179 (624)
T ss_pred             cCCCC
Confidence            87653

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.88  E-value=0.027  Score=50.69  Aligned_cols=23  Identities=26%  Similarity=0.489  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ++++||+||||||+++.+...+.
T Consensus         4 ilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            56779999999999988766554

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.

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=95.87  E-value=0.023  Score=53.33  Aligned_cols=131  Identities=12%  Similarity=0.088  Sum_probs=80.2

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhc----------cccccceeEEEEeCCCCCccccccceecccccccc
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS----------ATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWR  249 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~----------~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~  249 (367)
                      ...|..+|.|++|+||..++..+++++-  +....          .-..+..-.++.+.|..-+    .| .|.      
T Consensus         5 ~~~HA~Lf~G~~G~G~~~lA~~~A~~ll--C~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~----I~-id~------   71 (261)
T PRK05818          5 NKTHPLLLIERKGSFLKPFLYEYLTSIV--CTKANGFCKTCESCLKILNGKYNDFYLIFDQKNP----IK-KED------   71 (261)
T ss_pred             CCCcceeeeCCCCCcHHHHHHHHHHHHc--CCCCCCCCCCCHHHHHHhcCCCCCEEEecCCccc----CC-HHH------
Confidence            4568899999999999999888887763  21110          0011122233334443211    00 000      


Q ss_pred             cchHHHHHHHHhcCC--CCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhh
Q psy4734         250 DGILAKTFREMAVST--TPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVS  327 (367)
Q Consensus       250 dGil~~~~r~~~~~~--~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvs  327 (367)
                         .-.+.+......  ..+.|.+|++ +.|..-.+..|++|-   +|     |  ..|++.-||+-+++....-|..+|
T Consensus        72 ---ir~l~~~l~~~s~e~~~~KV~II~-~ae~m~~~AaNaLLK---~L-----E--EPp~~t~fiLit~~~~~lLpTI~S  137 (261)
T PRK05818         72 ---ALSIINKLNRPSVESNGKKIYIIY-GIEKLNKQSANSLLK---LI-----E--EPPKNTYGIFTTRNENNILNTILS  137 (261)
T ss_pred             ---HHHHHHHHccCchhcCCCEEEEec-cHhhhCHHHHHHHHH---hh-----c--CCCCCeEEEEEECChHhCchHhhh
Confidence               111223332222  3467999998 667777777777651   11     1  246788899999999999999999


Q ss_pred             ceeeEEeccc
Q psy4734         328 RVGMIYFELK  337 (367)
Q Consensus       328 Rcg~v~~~~~  337 (367)
                      ||-.+++.+.
T Consensus       138 RCq~~~~~~~  147 (261)
T PRK05818        138 RCVQYVVLSK  147 (261)
T ss_pred             heeeeecCCh
Confidence            9999998654

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.85  E-value=0.026  Score=59.56  Aligned_cols=149  Identities=14%  Similarity=0.124  Sum_probs=76.5

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcccc--ccceecccccccccchHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQ--LYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~--l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      .|.++|.||+|.|||++.+.+++++.-....    ..+...... -++..+..+.  -+-.+|..+..=.|- +-.++.+
T Consensus        39 ~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~----~~~~~Cg~C-~sC~~~~~~~~~n~~~ld~~~~~~vd~-Ir~li~~  112 (614)
T PRK14971         39 AHAYLFCGPRGVGKTTCARIFAKTINCQNLT----ADGEACNEC-ESCVAFNEQRSYNIHELDAASNNSVDD-IRNLIEQ  112 (614)
T ss_pred             CeeEEEECCCCCCHHHHHHHHHHHhCCCCCC----CCCCCCCcc-hHHHHHhcCCCCceEEecccccCCHHH-HHHHHHH
Confidence            4678899999999999999999887411000    000000000 0000000000  001112210000011 2223333


Q ss_pred             HhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceee-cCCCCeEEEecCCCCccCcchhhceeeEEeccc
Q psy4734         260 MAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIK-MSNTMNLIFECENLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       260 ~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~-l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~  337 (367)
                      +... -..+++.+|+|. +|..-.+..|.++.           .+. .|++..|||-++......|+..|||.++.+.+-
T Consensus       113 ~~~~P~~~~~KVvIIde-a~~Ls~~a~naLLK-----------~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv~f~~l  180 (614)
T PRK14971        113 VRIPPQIGKYKIYIIDE-VHMLSQAAFNAFLK-----------TLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRI  180 (614)
T ss_pred             HhhCcccCCcEEEEEEC-cccCCHHHHHHHHH-----------HHhCCCCCeEEEEEeCCchhchHHHHhhhheeecCCC
Confidence            3222 234689999995 33333334444431           111 356777889888888999999999999999865


Q ss_pred             CCchHHHHHHHHHH
Q psy4734         338 CISWTTFFLSYQNE  351 (367)
Q Consensus       338 ~~~~~~~~~swl~~  351 (367)
                      .-   .-+..|+..
T Consensus       181 s~---~ei~~~L~~  191 (614)
T PRK14971        181 QV---ADIVNHLQY  191 (614)
T ss_pred             CH---HHHHHHHHH
Confidence            42   233455554

>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=95.84  E-value=0.005  Score=50.25  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|+|||||||+.+.|++.+
T Consensus         2 I~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            4678999999999999998876

...

>PRK13342 recombination factor protein RarA; Reviewed

Probab=95.81  E-value=0.021  Score=57.33  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=20.3

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|.||+|+||||+.+.++..+
T Consensus        37 ~~ilL~GppGtGKTtLA~~ia~~~   60 (413)
T PRK13342         37 SSMILWGPPGTGKTTLARIIAGAT   60 (413)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            468889999999999999887643

>PRK08084 DNA replication initiation factor; Provisional

Probab=95.75  E-value=0.017  Score=53.53  Aligned_cols=25  Identities=8%  Similarity=0.115  Sum_probs=20.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..+++.||+|+|||++.+.++..+.
T Consensus        46 ~~l~l~Gp~G~GKThLl~a~~~~~~   70 (235)
T PRK08084         46 GYIYLWSREGAGRSHLLHAACAELS   70 (235)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3578899999999999998776654

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.63  E-value=0.0092  Score=55.57  Aligned_cols=24  Identities=29%  Similarity=0.404  Sum_probs=20.8

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ++++|.|||||||..+.|++.+..
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            568899999999999999987753

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.

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

Probab=95.60  E-value=0.052  Score=58.93  Aligned_cols=129  Identities=17%  Similarity=0.212  Sum_probs=69.9

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCC-Cccccccceeccccccc---ccchHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS-ITMGQLYGEFDSASHEW---RDGILAKTFRE  259 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka-~t~~~l~G~~d~~~~~W---~dGil~~~~r~  259 (367)
                      .++|+||||+|||++.+.++++++.-              ...++-.. ....++-|.-    ..|   ..|-+-..+++
T Consensus       351 ~i~l~GppG~GKTtl~~~ia~~l~~~--------------~~~i~~~~~~d~~~i~g~~----~~~~g~~~G~~~~~l~~  412 (784)
T PRK10787        351 ILCLVGPPGVGKTSLGQSIAKATGRK--------------YVRMALGGVRDEAEIRGHR----RTYIGSMPGKLIQKMAK  412 (784)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCC--------------EEEEEcCCCCCHHHhccch----hccCCCCCcHHHHHHHh
Confidence            37788999999999999988876421              11222111 1222333321    112   23444444443


Q ss_pred             HhcCCCCCceEEEEcCCCChH-------hhhhhhhccCCCCceeecc--cce-eecCCCCeEEEecCCCCccCcchhhce
Q psy4734         260 MAVSTTPDRKWIMFDGPIDAV-------WIENMNTVLDDNKKLCLIN--GEI-IKMSNTMNLIFECENLEFASPATVSRV  329 (367)
Q Consensus       260 ~~~~~~~~~~wivfDG~~d~~-------wie~lnsvlddn~~l~L~~--ge~-i~l~~~~~~ifE~~~l~~asPatvsRc  329 (367)
                      +.    ....-+++| .+|..       -...|-.+||+..-.....  .+. +.+ +++-|| -|+|....+||.++||
T Consensus       413 ~~----~~~~villD-Eidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dl-s~v~~i-~TaN~~~i~~aLl~R~  485 (784)
T PRK10787        413 VG----VKNPLFLLD-EIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDL-SDVMFV-ATSNSMNIPAPLLDRM  485 (784)
T ss_pred             cC----CCCCEEEEE-ChhhcccccCCCHHHHHHHHhccccEEEEecccccccccC-CceEEE-EcCCCCCCCHHHhcce
Confidence            32    122357777 33211       1355666677643333321  111 122 344344 4888778999999999


Q ss_pred             eeEEeccc
Q psy4734         330 GMIYFELK  337 (367)
Q Consensus       330 g~v~~~~~  337 (367)
                      -+|.+.+-
T Consensus       486 ~ii~~~~~  493 (784)
T PRK10787        486 EVIRLSGY  493 (784)
T ss_pred             eeeecCCC
Confidence            99887654

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.56  E-value=0.015  Score=53.80  Aligned_cols=23  Identities=22%  Similarity=0.234  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +++.|||||||||..+.|++.++
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            77889999999999999988763

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.56  E-value=0.028  Score=58.98  Aligned_cols=146  Identities=18%  Similarity=0.175  Sum_probs=76.3

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEE----Ee-CCCCCccccccceecccccccccchHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYK----II-NPKSITMGQLYGEFDSASHEWRDGILAKT  256 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~----~i-npka~t~~~l~G~~d~~~~~W~dGil~~~  256 (367)
                      .|..+|.||+|+||||+.+.+++++.--....     ..+....    .| +-.+...-    .+|..+..=.|- +-.+
T Consensus        38 ~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~-----~~~c~~c~~c~~i~~g~~~d~~----eid~~s~~~v~~-ir~l  107 (576)
T PRK14965         38 AHAFLFTGARGVGKTSTARILAKALNCEQGLT-----AEPCNVCPPCVEITEGRSVDVF----EIDGASNTGVDD-IREL  107 (576)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhhcCCCCCC-----CCCCCccHHHHHHhcCCCCCee----eeeccCccCHHH-HHHH
Confidence            46778999999999999999999885221100     0000000    00 00000011    112111100000 1111


Q ss_pred             HHHHhc-CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEec
Q psy4734         257 FREMAV-STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE  335 (367)
Q Consensus       257 ~r~~~~-~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~  335 (367)
                      ...+.. ......|-+|+|. +|..-.+..|.+|-     +|   |  ..++++.|||-|++.....|+..|||..+.+.
T Consensus       108 ~~~~~~~p~~~~~KVvIIde-v~~Lt~~a~naLLk-----~L---E--epp~~~~fIl~t~~~~kl~~tI~SRc~~~~f~  176 (576)
T PRK14965        108 RENVKYLPSRSRYKIFIIDE-VHMLSTNAFNALLK-----TL---E--EPPPHVKFIFATTEPHKVPITILSRCQRFDFR  176 (576)
T ss_pred             HHHHHhccccCCceEEEEEC-hhhCCHHHHHHHHH-----HH---H--cCCCCeEEEEEeCChhhhhHHHHHhhhhhhcC
Confidence            111111 1234678899994 44443444444431     00   0  13678899999999988888889999999887


Q ss_pred             ccCCchHHHHHHHHHH
Q psy4734         336 LKCISWTTFFLSYQNE  351 (367)
Q Consensus       336 ~~~~~~~~~~~swl~~  351 (367)
                      +-..   .-+..|+..
T Consensus       177 ~l~~---~~i~~~L~~  189 (576)
T PRK14965        177 RIPL---QKIVDRLRY  189 (576)
T ss_pred             CCCH---HHHHHHHHH
Confidence            5532   334455544

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.52  E-value=0.022  Score=55.70  Aligned_cols=140  Identities=21%  Similarity=0.282  Sum_probs=78.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccc----c--------------cc--------ceeEEEEeCCCCCccc
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSAT----M--------------KE--------FKTGYKIINPKSITMG  235 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~----~--------------~~--------~~v~~~~inpka~t~~  235 (367)
                      ..++++.|++|+||||+.+.++..+..........    +              ..        .++.+.. =|-.++-+
T Consensus        25 ~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~-lP~~~t~d  103 (337)
T TIGR02030        25 IGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMCEEVRIRVDSQEPLSIIKKPVPVVD-LPLGATED  103 (337)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccChHHhhhhhcccccccccCCCCcCC-CCCCCccc
Confidence            45699999999999999999988774321110000    0              00        0011111 24456667


Q ss_pred             cccceeccc----cc--ccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCC
Q psy4734         236 QLYGEFDSA----SH--EWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSN  307 (367)
Q Consensus       236 ~l~G~~d~~----~~--~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~  307 (367)
                      .++|..|..    ++  .++.|++.+          .+.-.+++|  ..+++.-...|-.+|++...-.-..|...+.+.
T Consensus       104 ~l~G~~d~~~~l~~g~~~~~~GlL~~----------A~~GvL~lDEi~~L~~~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~  173 (337)
T TIGR02030       104 RVCGTLDIERALTEGVKAFEPGLLAR----------ANRGILYIDEVNLLEDHLVDVLLDVAASGWNVVEREGISIRHPA  173 (337)
T ss_pred             ceecchhHhhHhhcCCEEeecCccee----------ccCCEEEecChHhCCHHHHHHHHHHHHhCCeEEEECCEEEEcCC
Confidence            899987632    22  245554321          223567777  234555445555566665433334566666665


Q ss_pred             CCeEEEecCCCC--ccCcchhhceeeEE
Q psy4734         308 TMNLIFECENLE--FASPATVSRVGMIY  333 (367)
Q Consensus       308 ~~~~ifE~~~l~--~asPatvsRcg~v~  333 (367)
                      .+ ++.-+.|..  ...|+...|.++..
T Consensus       174 r~-iviat~np~eg~l~~~LldRf~l~i  200 (337)
T TIGR02030       174 RF-VLVGSGNPEEGELRPQLLDRFGLHA  200 (337)
T ss_pred             CE-EEEeccccccCCCCHHHHhhcceEE
Confidence            44 344444433  47789999999753

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

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=95.46  E-value=0.0087  Score=60.68  Aligned_cols=145  Identities=17%  Similarity=0.195  Sum_probs=71.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      .++++.||+|+|||++.+.++..+.....       +.+|.+  ++.... +.++...+       ..|-...+..... 
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~-------~~~v~y--i~~~~f-~~~~~~~~-------~~~~~~~f~~~~~-  192 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEP-------DLRVMY--ITSEKF-LNDLVDSM-------KEGKLNEFREKYR-  192 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHhCC-------CCeEEE--EEHHHH-HHHHHHHH-------hcccHHHHHHHHH-
Confidence            35889999999999999988876643210       112322  222110 01111111       1111112221110 


Q ss_pred             CCCCCceEEEEcCCC---C-----hHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee---e
Q psy4734         263 STTPDRKWIMFDGPI---D-----AVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG---M  331 (367)
Q Consensus       263 ~~~~~~~wivfDG~~---d-----~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg---~  331 (367)
                         ...+.+++|-.-   +     ....+.+|.+.+.++.+.+++..            ...++....|..+||+.   +
T Consensus       193 ---~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~------------~p~~l~~l~~rL~SR~~~gl~  257 (440)
T PRK14088        193 ---KKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDR------------EPQKLSEFQDRLVSRFQMGLV  257 (440)
T ss_pred             ---hcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCC------------CHHHHHHHHHHHhhHHhcCce
Confidence               135789999431   1     12444455555544433332211            11246667889999997   7


Q ss_pred             EEecccCCchH-HHHHHHHHHhhhhhhHHH
Q psy4734         332 IYFELKCISWT-TFFLSYQNELKEKLNEEQ  360 (367)
Q Consensus       332 v~~~~~~~~~~-~~~~swl~~~~~~~~~~~  360 (367)
                      +.+.+.+..-+ .++........-.++++.
T Consensus       258 v~i~~pd~e~r~~IL~~~~~~~~~~l~~ev  287 (440)
T PRK14088        258 AKLEPPDEETRKKIARKMLEIEHGELPEEV  287 (440)
T ss_pred             EeeCCCCHHHHHHHHHHHHHhcCCCCCHHH
Confidence            77877765433 334444443333344443

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.40  E-value=0.033  Score=55.19  Aligned_cols=95  Identities=19%  Similarity=0.251  Sum_probs=50.6

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhc---cc---------------cccceeEEEE-eCCCCCc--cccc--c
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS---AT---------------MKEFKTGYKI-INPKSIT--MGQL--Y  238 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~---~~---------------~~~~~v~~~~-inpka~t--~~~l--~  238 (367)
                      ..-++|+||+|.||||++--||+.+....+...   -|               .+...|...+ ..|+.+.  +..|  +
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            334778999999999998888877763332211   01               1111222221 2333221  1111  0


Q ss_pred             c--eecccccccccchHHHHHHHHhcCCCCCceEEEEcCC
Q psy4734         239 G--EFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGP  276 (367)
Q Consensus       239 G--~~d~~~~~W~dGil~~~~r~~~~~~~~~~~wivfDG~  276 (367)
                      -  -+|...+.-.|+....=+++......+..-.+|++--
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat  322 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSAT  322 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecC
Confidence            0  0355566677777777777766555555556666533

>PRK06217 hypothetical protein; Validated

Probab=95.39  E-value=0.015  Score=51.55  Aligned_cols=22  Identities=36%  Similarity=0.431  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|.+||||||+.+.|++.+
T Consensus         4 I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          4 IHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6788999999999999988765

>PRK05642 DNA replication initiation factor; Validated

Probab=95.36  E-value=0.026  Score=52.20  Aligned_cols=24  Identities=13%  Similarity=0.095  Sum_probs=19.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.+.|++|+|||.+.+.++..+
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~   69 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRF   69 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            457888999999999988876654

>KOG0741|consensus

Probab=95.36  E-value=0.021  Score=58.04  Aligned_cols=62  Identities=21%  Similarity=0.319  Sum_probs=40.6

Q ss_pred             CCCceeecc------hHHHHHHHHhcCCcccchhhHHHH--HhhhhhheeccccCCCchhhHHHHHHHHH
Q psy4734         146 FFPRFFFLS------NDELLEILSETKDPLRVQPHLKKI--FEVRHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       146 ~fprf~f~s------~~~Ll~ils~~~~~~~lq~~l~k~--~~~~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .-|.|-|-+      +.|.-+|..++-..+-.-|++-+-  +....|+++.||||+|||.+.+-+.+.|+
T Consensus       212 i~Pdf~Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLN  281 (744)
T KOG0741|consen  212 INPDFNFESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLN  281 (744)
T ss_pred             cCCCCChhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhc
Confidence            456676633      456666666654444444454333  34668899999999999999887666554

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=95.33  E-value=0.039  Score=53.45  Aligned_cols=155  Identities=16%  Similarity=0.148  Sum_probs=82.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhh--hc--cccccceeEEEEeCCCCCcccccc-----ceecccccccccch
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAK--KS--ATMKEFKTGYKIINPKSITMGQLY-----GEFDSASHEWRDGI  252 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~--~~--~~~~~~~v~~~~inpka~t~~~l~-----G~~d~~~~~W~dGi  252 (367)
                      .|..+|.||+|.||+++...+++++.--...  ..  .......-.++.+.|.....++..     +..+. ...-..-|
T Consensus        26 ~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g~~~~~~~~~~~~~-~~~~~~~I  104 (314)
T PRK07399         26 APAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQGKLITASEAEEAGL-KRKAPPQI  104 (314)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccccccchhhhhhccc-cccccccC
Confidence            4789999999999999999998887422100  00  000111222333444322211111     00000 00000012


Q ss_pred             HHHHHHHHh----cC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhh
Q psy4734         253 LAKTFREMA----VS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVS  327 (367)
Q Consensus       253 l~~~~r~~~----~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvs  327 (367)
                      -..-+|+..    .. ...+.|.+|+|. .|..=.+.-|.+|.           .+.=||+..||+=+++....-|...|
T Consensus       105 ~id~ir~i~~~l~~~p~~~~~kVvII~~-ae~m~~~aaNaLLK-----------~LEEPp~~~fILi~~~~~~Ll~TI~S  172 (314)
T PRK07399        105 RLEQIREIKRFLSRPPLEAPRKVVVIED-AETMNEAAANALLK-----------TLEEPGNGTLILIAPSPESLLPTIVS  172 (314)
T ss_pred             cHHHHHHHHHHHccCcccCCceEEEEEc-hhhcCHHHHHHHHH-----------HHhCCCCCeEEEEECChHhCcHHHHh
Confidence            122334332    22 235689999995 33333333344431           11114466788888889999999999


Q ss_pred             ceeeEEecccCCchHHHHHHHHHHh
Q psy4734         328 RVGMIYFELKCISWTTFFLSYQNEL  352 (367)
Q Consensus       328 Rcg~v~~~~~~~~~~~~~~swl~~~  352 (367)
                      ||-.+.+.+-.   ..-+..||...
T Consensus       173 Rcq~i~f~~l~---~~~~~~~L~~~  194 (314)
T PRK07399        173 RCQIIPFYRLS---DEQLEQVLKRL  194 (314)
T ss_pred             hceEEecCCCC---HHHHHHHHHHh
Confidence            99999998754   24556676654

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=95.25  E-value=0.045  Score=56.88  Aligned_cols=148  Identities=20%  Similarity=0.200  Sum_probs=77.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc------cccccceec-ccc---cc-ccc
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT------MGQLYGEFD-SAS---HE-WRD  250 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t------~~~l~G~~d-~~~---~~-W~d  250 (367)
                      ...+++.||+|+|||++.+.+...........  ..  ..-....+|+.+..      .+.++|... |..   +. ...
T Consensus        86 ~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~--~~--~~~~fi~id~~~~~~~~~~~~~~li~~~~~p~~~~~~~~g~~  161 (531)
T TIGR02902        86 PQHVIIYGPPGVGKTAAARLVLEEAKKNPASP--FK--EGAAFVEIDATTARFDERGIADPLIGSVHDPIYQGAGPLGIA  161 (531)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhhhccCCC--cC--CCCCEEEEccccccCCccccchhhcCCcccchhccccccccC
Confidence            35688999999999999888765332211100  00  00122334543321      134455421 100   00 011


Q ss_pred             chHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeeccc------ce----------eecCCCCeEE
Q psy4734         251 GILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLING------EI----------IKMSNTMNLI  312 (367)
Q Consensus       251 Gil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~g------e~----------i~l~~~~~~i  312 (367)
                      |....   +...-+..+..-+++|  +.+++.-.+.|-.+|++.+.. +.+|      +.          -..+..+++|
T Consensus       162 g~~~~---~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI  237 (531)
T TIGR02902       162 GIPQP---KPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVF-LDSAYYNSENPNIPSHIHDIFQNGLPADFRLI  237 (531)
T ss_pred             Ccccc---cCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeee-eccccccccCcccccchhhhcccCcccceEEE
Confidence            11000   0000012234688888  445666666666666654433 2211      11          1246678888


Q ss_pred             EecC-CCCccCcchhhceeeEEeccc
Q psy4734         313 FECE-NLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       313 fE~~-~l~~asPatvsRcg~v~~~~~  337 (367)
                      .-|+ ++....||..|||-.+++.+-
T Consensus       238 ~ATt~~p~~L~paLrsR~~~I~f~pL  263 (531)
T TIGR02902       238 GATTRNPEEIPPALRSRCVEIFFRPL  263 (531)
T ss_pred             EEecCCcccCChHHhhhhheeeCCCC
Confidence            8766 477899999999999998764

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.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.24  E-value=0.03  Score=49.75  Aligned_cols=24  Identities=29%  Similarity=0.360  Sum_probs=21.0

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||..+.|++++..
T Consensus         6 IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         6 IVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            456799999999999999998864

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=95.23  E-value=0.026  Score=57.41  Aligned_cols=147  Identities=13%  Similarity=0.176  Sum_probs=74.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      .++++.||+|+|||++.+.++..+.....         ......++.... ..++.+.+       .++....+..... 
T Consensus       149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~---------~~~v~yi~~~~~-~~~~~~~~-------~~~~~~~~~~~~~-  210 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAIGNYILEKNP---------NAKVVYVTSEKF-TNDFVNAL-------RNNTMEEFKEKYR-  210 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHhCC---------CCeEEEEEHHHH-HHHHHHHH-------HcCcHHHHHHHHh-
Confidence            45888999999999999998876643210         112222333222 12222222       1122222222221 


Q ss_pred             CCCCCceEEEEcCCCCh---------HhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee---
Q psy4734         263 STTPDRKWIMFDGPIDA---------VWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG---  330 (367)
Q Consensus       263 ~~~~~~~wivfDG~~d~---------~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg---  330 (367)
                          ....+++| +++.         .....+|.+.+.++.+.+++.-            -..++....|+..||+.   
T Consensus       211 ----~~dlLiiD-Di~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~------------~p~~l~~l~~~l~SRl~~gl  273 (450)
T PRK00149        211 ----SVDVLLID-DIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDR------------PPKELPGLEERLRSRFEWGL  273 (450)
T ss_pred             ----cCCEEEEe-hhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCC------------CHHHHHHHHHHHHhHhcCCe
Confidence                24688998 4432         2233444444444333332211            01234446688999994   


Q ss_pred             eEEecccCCc-hHHHHHHHHHHhhhhhhHHHHhhh
Q psy4734         331 MIYFELKCIS-WTTFFLSYQNELKEKLNEEQFEMA  364 (367)
Q Consensus       331 ~v~~~~~~~~-~~~~~~swl~~~~~~~~~~~~~~~  364 (367)
                      ++.+.+-+.. -..++...+...+..++++.-+++
T Consensus       274 ~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~i  308 (450)
T PRK00149        274 TVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFI  308 (450)
T ss_pred             eEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            5667765543 444555555554445666654443

>KOG0730|consensus

Probab=95.21  E-value=0.041  Score=57.31  Aligned_cols=174  Identities=19%  Similarity=0.266  Sum_probs=94.0

Q ss_pred             CCCceeecc---hHHHHHHHHhcC-CcccchhhHHHH-HhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccc
Q psy4734         146 FFPRFFFLS---NDELLEILSETK-DPLRVQPHLKKI-FEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEF  220 (367)
Q Consensus       146 ~fprf~f~s---~~~Ll~ils~~~-~~~~lq~~l~k~-~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~  220 (367)
                      ..|.+.|-+   .+++...+.++- +|.+.-..+.++ +.-..||++.||||||||++.+.++..-+             
T Consensus       427 e~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~-------------  493 (693)
T KOG0730|consen  427 EMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAG-------------  493 (693)
T ss_pred             cCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhc-------------
Confidence            455555532   445555565542 333322234444 36778999999999999999887764321             


Q ss_pred             eeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcCCCCCceEEEEcCCCChHhhhh-----------hhhcc
Q psy4734         221 KTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFDGPIDAVWIEN-----------MNTVL  289 (367)
Q Consensus       221 ~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~~~~~~~wivfDG~~d~~wie~-----------lnsvl  289 (367)
                            +|--++.-.|||--|--+    .+-.+..++|++..   ..+..|.|| .+|+.-.+.           ||++ 
T Consensus       494 ------~nFlsvkgpEL~sk~vGe----SEr~ir~iF~kAR~---~aP~IiFfD-EiDsi~~~R~g~~~~v~~RVlsqL-  558 (693)
T KOG0730|consen  494 ------MNFLSVKGPELFSKYVGE----SERAIREVFRKARQ---VAPCIIFFD-EIDALAGSRGGSSSGVTDRVLSQL-  558 (693)
T ss_pred             ------CCeeeccCHHHHHHhcCc----hHHHHHHHHHHHhh---cCCeEEehh-hHHhHhhccCCCccchHHHHHHHH-
Confidence                  333445545554433211    12245556666643   334888888 665554443           2322 


Q ss_pred             CCCCceeecccceeecCCCCeEEEecCCCCccCcchhh--c-eeeEEecccCCchH-HHHHHHHHHhhh
Q psy4734         290 DDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVS--R-VGMIYFELKCISWT-TFFLSYQNELKE  354 (367)
Q Consensus       290 ddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvs--R-cg~v~~~~~~~~~~-~~~~swl~~~~~  354 (367)
                           |+--+|=  .-..++-+|=-|.=-..+.||.+.  | =-+||+...+..-+ .+++-..++.|.
T Consensus       559 -----LtEmDG~--e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~  620 (693)
T KOG0730|consen  559 -----LTEMDGL--EALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPF  620 (693)
T ss_pred             -----HHHcccc--cccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCC
Confidence                 2222231  111334333334334556777775  3 24899998775543 455656665554

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=95.10  E-value=0.023  Score=56.87  Aligned_cols=146  Identities=14%  Similarity=0.198  Sum_probs=73.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      .++++.|++|+|||.+.+.++..+.....       +..|.  .++..... .++.+.       ..++....+.+... 
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~-------~~~v~--yi~~~~~~-~~~~~~-------~~~~~~~~~~~~~~-  198 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNP-------NAKVV--YVSSEKFT-NDFVNA-------LRNNKMEEFKEKYR-  198 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCC-------CCcEE--EEEHHHHH-HHHHHH-------HHcCCHHHHHHHHH-
Confidence            45788999999999999988876643210       11222  23222111 111111       12222223332221 


Q ss_pred             CCCCCceEEEEcCCCCh-----H----hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee---
Q psy4734         263 STTPDRKWIMFDGPIDA-----V----WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG---  330 (367)
Q Consensus       263 ~~~~~~~wivfDG~~d~-----~----wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg---  330 (367)
                          ....+++| +++.     .    ....+|.+.+.++.+.+++.-            ...++....|...||+.   
T Consensus       199 ----~~dlLiiD-Di~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~------------~p~~l~~l~~~l~SRl~~g~  261 (405)
T TIGR00362       199 ----SVDLLLID-DIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDR------------PPKELPGLEERLRSRFEWGL  261 (405)
T ss_pred             ----hCCEEEEe-hhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCC------------CHHHHhhhhhhhhhhccCCe
Confidence                23689998 4432     1    223344444444333332211            12235556788999995   


Q ss_pred             eEEecccCCc-hHHHHHHHHHHhhhhhhHHHHhh
Q psy4734         331 MIYFELKCIS-WTTFFLSYQNELKEKLNEEQFEM  363 (367)
Q Consensus       331 ~v~~~~~~~~-~~~~~~swl~~~~~~~~~~~~~~  363 (367)
                      .+.+.+-+.. -..++...+......+.++.-++
T Consensus       262 ~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~  295 (405)
T TIGR00362       262 VVDIEPPDLETRLAILQKKAEEEGLELPDEVLEF  295 (405)
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            4788776644 33455555555555555554333

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).

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.09  E-value=0.059  Score=56.69  Aligned_cols=61  Identities=15%  Similarity=0.168  Sum_probs=41.1

Q ss_pred             CCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEeccc
Q psy4734         266 PDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       266 ~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~  337 (367)
                      ...+-+|+|. +|..--+.+|.+|.        .-|  ..+++..|||-++++....|...|||-.+.+.+-
T Consensus       119 ~~~kVvIIDE-a~~L~~~a~naLLk--------~LE--epp~~tv~Il~t~~~~kll~tI~SR~~~i~f~~l  179 (585)
T PRK14950        119 ARYKVYIIDE-VHMLSTAAFNALLK--------TLE--EPPPHAIFILATTEVHKVPATILSRCQRFDFHRH  179 (585)
T ss_pred             CCeEEEEEeC-hHhCCHHHHHHHHH--------HHh--cCCCCeEEEEEeCChhhhhHHHHhccceeeCCCC
Confidence            4578999994 33332344444321        011  1245777889999999998999999999998754

>KOG0733|consensus

Probab=95.05  E-value=0.031  Score=57.81  Aligned_cols=73  Identities=23%  Similarity=0.308  Sum_probs=44.5

Q ss_pred             HhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHH
Q psy4734         179 FEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFR  258 (367)
Q Consensus       179 ~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r  258 (367)
                      +....||++.||||||||.+.+..|.--              .     +|--++--.||+.-|=        |=-.+++|
T Consensus       542 i~~PsGvLL~GPPGCGKTLlAKAVANEa--------------g-----~NFisVKGPELlNkYV--------GESErAVR  594 (802)
T KOG0733|consen  542 IDAPSGVLLCGPPGCGKTLLAKAVANEA--------------G-----ANFISVKGPELLNKYV--------GESERAVR  594 (802)
T ss_pred             CCCCCceEEeCCCCccHHHHHHHHhhhc--------------c-----CceEeecCHHHHHHHh--------hhHHHHHH
Confidence            3567899999999999998877654211              1     2323344445554442        22345666


Q ss_pred             HHhcC-CCCCceEEEEcCCCCh
Q psy4734         259 EMAVS-TTPDRKWIMFDGPIDA  279 (367)
Q Consensus       259 ~~~~~-~~~~~~wivfDG~~d~  279 (367)
                      +.... -...+.-|+|| .+|+
T Consensus       595 ~vFqRAR~saPCVIFFD-EiDa  615 (802)
T KOG0733|consen  595 QVFQRARASAPCVIFFD-EIDA  615 (802)
T ss_pred             HHHHHhhcCCCeEEEec-chhh
Confidence            65442 34668999999 4443

>TIGR01351 adk adenylate kinases

Probab=95.05  E-value=0.025  Score=51.21  Aligned_cols=22  Identities=27%  Similarity=0.440  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||..+.|++.+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            5778999999999999888654

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.01  E-value=0.058  Score=58.99  Aligned_cols=105  Identities=20%  Similarity=0.235  Sum_probs=56.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEe--CCCCCccccccceecccccccc-cchHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKII--NPKSITMGQLYGEFDSASHEWR-DGILAKTFREM  260 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~i--npka~t~~~l~G~~d~~~~~W~-dGil~~~~r~~  260 (367)
                      .++|.||+|+|||++.+.|++.+-.-.         ..+....+  ++...+...|.|.. |.-.... .|.++..+|+.
T Consensus       541 ~~lf~Gp~GvGKt~lA~~LA~~l~~~~---------~~~~~~d~s~~~~~~~~~~l~g~~-~gyvg~~~~~~l~~~~~~~  610 (821)
T CHL00095        541 SFLFSGPTGVGKTELTKALASYFFGSE---------DAMIRLDMSEYMEKHTVSKLIGSP-PGYVGYNEGGQLTEAVRKK  610 (821)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhcCCc---------cceEEEEchhccccccHHHhcCCC-CcccCcCccchHHHHHHhC
Confidence            367899999999999999998763110         11111111  11122334455531 1011122 35677777653


Q ss_pred             hcCCCCCceEEEEcCCCChHhhhhhh---hccCCCCceeecccceeecC
Q psy4734         261 AVSTTPDRKWIMFDGPIDAVWIENMN---TVLDDNKKLCLINGEIIKMS  306 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~wie~ln---svlddn~~l~L~~ge~i~l~  306 (367)
                            +..-++|| ++|..-.+..|   .+|| +..++-+.|..+.+.
T Consensus       611 ------p~~VvllD-eieka~~~v~~~Llq~le-~g~~~d~~g~~v~~~  651 (821)
T CHL00095        611 ------PYTVVLFD-EIEKAHPDIFNLLLQILD-DGRLTDSKGRTIDFK  651 (821)
T ss_pred             ------CCeEEEEC-ChhhCCHHHHHHHHHHhc-cCceecCCCcEEecC
Confidence                  34788999 55444444444   4444 445556666666654

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=94.97  E-value=0.01  Score=48.23  Aligned_cols=26  Identities=35%  Similarity=0.423  Sum_probs=21.4

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ..+++.||+|+||||+.+.++..+..
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~   28 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGP   28 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCC
Confidence            45788999999999999988776643

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.

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

Probab=94.97  E-value=0.048  Score=54.76  Aligned_cols=25  Identities=36%  Similarity=0.498  Sum_probs=21.6

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...+++.||||+|||++.+.|++.+
T Consensus       108 ~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342        108 KSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Confidence            3568899999999999999998765

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

Probab=94.93  E-value=0.067  Score=53.69  Aligned_cols=25  Identities=36%  Similarity=0.498  Sum_probs=21.6

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...+++.||||+|||++.+.|++.+
T Consensus       116 ~~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382       116 KSNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             CceEEEECCCCcCHHHHHHHHHHhc
Confidence            3568899999999999999998665

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.

>PRK08118 topology modulation protein; Reviewed

Probab=94.90  E-value=0.012  Score=51.45  Aligned_cols=23  Identities=26%  Similarity=0.504  Sum_probs=19.8

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -++++|++||||||+.+.|++.+
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            46889999999999998888765

>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=94.88  E-value=0.012  Score=49.32  Aligned_cols=22  Identities=32%  Similarity=0.474  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ++++|+|||||||..+.|++.+
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            4678999999999999887655

...

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=94.78  E-value=0.018  Score=51.15  Aligned_cols=36  Identities=25%  Similarity=0.290  Sum_probs=28.4

Q ss_pred             chhhHHHHHhhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         171 VQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       171 lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ....+..++.....+.++||+||||||+++.|...+
T Consensus        14 ~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          14 QAAYLWLAVEARKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             HHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            334566677777778899999999999999877654

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

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

Probab=94.76  E-value=0.032  Score=59.70  Aligned_cols=113  Identities=23%  Similarity=0.253  Sum_probs=67.5

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeC----CCCCccccccceecccc-cccccchHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIIN----PKSITMGQLYGEFDSAS-HEWRDGILAKTFR  258 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~in----pka~t~~~l~G~~d~~~-~~W~dGil~~~~r  258 (367)
                      +.+|.||+|.|||.+.+.|+..|-.-.         .  ....++    -...|+..|.|.- |.= +-=.-|.|+.++|
T Consensus       523 sFlF~GPTGVGKTELAkaLA~~Lfg~e---------~--aliR~DMSEy~EkHsVSrLIGaP-PGYVGyeeGG~LTEaVR  590 (786)
T COG0542         523 SFLFLGPTGVGKTELAKALAEALFGDE---------Q--ALIRIDMSEYMEKHSVSRLIGAP-PGYVGYEEGGQLTEAVR  590 (786)
T ss_pred             EEEeeCCCcccHHHHHHHHHHHhcCCC---------c--cceeechHHHHHHHHHHHHhCCC-CCCceeccccchhHhhh
Confidence            356799999999999999998874210         0  011111    1122344454431 000 0012578999998


Q ss_pred             HHhcCCCCCceEEEEcCCC---ChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC
Q psy4734         259 EMAVSTTPDRKWIMFDGPI---DAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL  318 (367)
Q Consensus       259 ~~~~~~~~~~~wivfDG~~---d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l  318 (367)
                      +      .+..-|+|| .+   +|.-..-|-.|||| ..|+=+.|-.|-+.+.+  |+=|+|+
T Consensus       591 r------~PySViLlD-EIEKAHpdV~nilLQVlDd-GrLTD~~Gr~VdFrNti--IImTSN~  643 (786)
T COG0542         591 R------KPYSVILLD-EIEKAHPDVFNLLLQVLDD-GRLTDGQGRTVDFRNTI--IIMTSNA  643 (786)
T ss_pred             c------CCCeEEEec-hhhhcCHHHHHHHHHHhcC-CeeecCCCCEEecceeE--EEEeccc
Confidence            5      345688899 65   44444455556655 56788888888888774  4445553

>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=94.74  E-value=0.018  Score=46.96  Aligned_cols=22  Identities=36%  Similarity=0.410  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      |++.|++||||||+.+.|++.+
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            4678999999999999999885

...

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=94.70  E-value=0.047  Score=57.42  Aligned_cols=126  Identities=18%  Similarity=0.210  Sum_probs=81.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceeccc----cc--ccccchHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSA----SH--EWRDGILAKT  256 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~----~~--~W~dGil~~~  256 (367)
                      .+|++.|++|+|||++.+.+++.+...            ..+..+.+ ..+.+.|+|.+|..    ++  .|..|++..+
T Consensus        17 g~vLl~G~~GtgKs~lar~l~~~~~~~------------~pfv~i~~-~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A   83 (589)
T TIGR02031        17 GGVAIRARAGTGKTALARALAEILPPI------------MPFVELPL-GVTEDRLIGGIDVEESLAGGQRVTQPGLLDEA   83 (589)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhCCcC------------CCeEecCc-ccchhhcccchhhhhhhhcCcccCCCCCeeeC
Confidence            468899999999999999887755321            11233443 57788999997632    12  3555654321


Q ss_pred             HHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC----ccCcchhhcee
Q psy4734         257 FREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE----FASPATVSRVG  330 (367)
Q Consensus       257 ~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~----~asPatvsRcg  330 (367)
                                +.--+++|  ..+++.-...|-.+|++..+-.-..|.....+..+++|- +++-.    ...|+...|.+
T Consensus        84 ----------~~GvL~lDEi~rl~~~~q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIA-t~np~e~~g~L~~~LldRf~  152 (589)
T TIGR02031        84 ----------PRGVLYVDMANLLDDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIA-TYDPAEGGGGLPDHLLDRLA  152 (589)
T ss_pred             ----------CCCcEeccchhhCCHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEE-ecCCccccCCCCHHHHHhcc
Confidence                      12345666  234566666666677665443334577788888888884 66643    47789999998


Q ss_pred             eE
Q psy4734         331 MI  332 (367)
Q Consensus       331 ~v  332 (367)
                      +.
T Consensus       153 l~  154 (589)
T TIGR02031       153 LH  154 (589)
T ss_pred             Ce
Confidence            83

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.

>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=94.66  E-value=0.036  Score=50.79  Aligned_cols=144  Identities=21%  Similarity=0.234  Sum_probs=69.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS  263 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~  263 (367)
                      .+.+.|++|+|||.+++.++..+.....       +.+|.|.       +..++...+..   .-.+|-...+....   
T Consensus        36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~-------~~~v~y~-------~~~~f~~~~~~---~~~~~~~~~~~~~~---   95 (219)
T PF00308_consen   36 PLFLYGPSGLGKTHLLQAIANEAQKQHP-------GKRVVYL-------SAEEFIREFAD---ALRDGEIEEFKDRL---   95 (219)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHCT-------TS-EEEE-------EHHHHHHHHHH---HHHTTSHHHHHHHH---
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhccc-------cccceee-------cHHHHHHHHHH---HHHcccchhhhhhh---
Confidence            4788899999999998888776654321       1234332       22222222110   01112333333333   


Q ss_pred             CCCCceEEEEcCCCC-----hHhhhhh----hhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee---e
Q psy4734         264 TTPDRKWIMFDGPID-----AVWIENM----NTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG---M  331 (367)
Q Consensus       264 ~~~~~~wivfDG~~d-----~~wie~l----nsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg---~  331 (367)
                        .....+++| +++     +.|-|.|    |...+.++.+-+++..            ...++....|-.+||.+   .
T Consensus        96 --~~~DlL~iD-Di~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~------------~P~~l~~~~~~L~SRl~~Gl~  160 (219)
T PF00308_consen   96 --RSADLLIID-DIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDR------------PPSELSGLLPDLRSRLSWGLV  160 (219)
T ss_dssp             --CTSSEEEEE-TGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-------------TTTTTTS-HHHHHHHHCSEE
T ss_pred             --hcCCEEEEe-cchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCC------------CCccccccChhhhhhHhhcch
Confidence              245899999 332     3455555    4444455555444322            22356677898888864   3


Q ss_pred             EEecccCCc-hHHHHHHHHHHhhhhhhHHHHh
Q psy4734         332 IYFELKCIS-WTTFFLSYQNELKEKLNEEQFE  362 (367)
Q Consensus       332 v~~~~~~~~-~~~~~~swl~~~~~~~~~~~~~  362 (367)
                      +-+.+.+.. -..++..........++++..+
T Consensus       161 ~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~  192 (219)
T PF00308_consen  161 VELQPPDDEDRRRILQKKAKERGIELPEEVIE  192 (219)
T ss_dssp             EEE----HHHHHHHHHHHHHHTT--S-HHHHH
T ss_pred             hhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            445544332 2334444554444445555433

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=94.62  E-value=0.042  Score=53.93  Aligned_cols=144  Identities=21%  Similarity=0.261  Sum_probs=76.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhc-c------c--------------cccc-----eeEEEEeCCCCCcccc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKS-A------T--------------MKEF-----KTGYKIINPKSITMGQ  236 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~-~------~--------------~~~~-----~v~~~~inpka~t~~~  236 (367)
                      .|+++.|++|+|||++.+.+.+.+........ +      .              .+..     ++.+.. =|-..+-+.
T Consensus        39 ~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~~~p~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~-lp~~~ted~  117 (350)
T CHL00081         39 GGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSDPELMSDEVREAIQNGETIETEKIKIPMVD-LPLGATEDR  117 (350)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCCCCCCChhhhchhhhhhhcccccccceecccccee-cCCCCchhh
Confidence            67999999999999999999877754321100 0      0              0000     111111 145567889


Q ss_pred             ccceecccccccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEe
Q psy4734         237 LYGEFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFE  314 (367)
Q Consensus       237 l~G~~d~~~~~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE  314 (367)
                      |+|.+|.+. .+..|..  .++.+. -...+.--+++|  ..+++.--..|-.++++...-.-..|...+.+..+.++- 
T Consensus       118 l~G~iD~~~-al~~g~~--~~~~Gl-L~~A~~GiL~lDEInrL~~~~Q~~LLeam~e~~~~ier~G~s~~~p~rfivia-  192 (350)
T CHL00081        118 VCGTIDIEK-ALTEGVK--AFEPGL-LAKANRGILYVDEVNLLDDHLVDILLDSAASGWNTVEREGISIRHPARFVLVG-  192 (350)
T ss_pred             ccCcccHHH-HhhcCcc--cccCCe-eeecCCCEEEecChHhCCHHHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEe-
Confidence            999998753 4544421  111110 011233567777  224444444444445442211112355556665554444 


Q ss_pred             cCCCC--ccCcchhhceeeE
Q psy4734         315 CENLE--FASPATVSRVGMI  332 (367)
Q Consensus       315 ~~~l~--~asPatvsRcg~v  332 (367)
                      +.+..  ...|+...|.++.
T Consensus       193 T~np~eg~l~~~LldRf~l~  212 (350)
T CHL00081        193 SGNPEEGELRPQLLDRFGMH  212 (350)
T ss_pred             ccCcccCCCCHHHHHHhCce
Confidence            44432  3788889998864

>KOG0733|consensus

Probab=94.57  E-value=0.019  Score=59.24  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=21.7

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -..||++.||||||||.+.+.++..+
T Consensus       222 PprGvLlHGPPGCGKT~lA~AiAgel  247 (802)
T KOG0733|consen  222 PPRGVLLHGPPGCGKTSLANAIAGEL  247 (802)
T ss_pred             CCCceeeeCCCCccHHHHHHHHhhhc
Confidence            34789999999999999988877554

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=94.52  E-value=0.03  Score=53.88  Aligned_cols=37  Identities=27%  Similarity=0.372  Sum_probs=30.9

Q ss_pred             chhhHHHHHhhhhhheeccccCCCchhhHHHHHHHHH
Q psy4734         171 VQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       171 lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ....|.++...+..+++.|++||||||+++.|...+.
T Consensus       121 ~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~  157 (299)
T TIGR02782       121 QRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIA  157 (299)
T ss_pred             HHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            3456888888888899999999999999998876654

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.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=94.52  E-value=0.017  Score=56.47  Aligned_cols=25  Identities=32%  Similarity=0.480  Sum_probs=20.1

Q ss_pred             hhhh--heeccccCCCchhhHHHHHHH
Q psy4734         181 VRHG--LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       181 ~~~~--v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ...|  +.+.|||||||||+++++|.-
T Consensus        28 i~~Gef~~lLGPSGcGKTTlLR~IAGf   54 (352)
T COG3842          28 IKKGEFVTLLGPSGCGKTTLLRMIAGF   54 (352)
T ss_pred             ecCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3444  667899999999999998754

>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=94.51  E-value=0.013  Score=53.14  Aligned_cols=120  Identities=18%  Similarity=0.180  Sum_probs=66.7

Q ss_pred             HhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhc--c------c---cccceeEE--EEeCCCCCccccccceecccc
Q psy4734         179 FEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS--A------T---MKEFKTGY--KIINPKSITMGQLYGEFDSAS  245 (367)
Q Consensus       179 ~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~--~------~---~~~~~v~~--~~inpka~t~~~l~G~~d~~~  245 (367)
                      -.+.|++++.||+|+|||++.+.+...|-.+...+.  .      .   .....+..  .+--+.+.|...|.|.-    
T Consensus        19 AaG~h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~~~~~~~~~~~~Pfr~phhs~s~~~liGgg----   94 (206)
T PF01078_consen   19 AAGGHHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAGLGPDEGLIRQRPFRAPHHSASEAALIGGG----   94 (206)
T ss_dssp             HHCC--EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT---S---EEEE---EEEE-TT--HHHHHEEG----
T ss_pred             HcCCCCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccccCCCCCceecCCCcccCCCCcCHHHHhCCC----
Confidence            346799999999999999999988876655543221  0      0   00001110  11123456667777752    


Q ss_pred             cccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEE
Q psy4734         246 HEWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLI  312 (367)
Q Consensus       246 ~~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~i  312 (367)
                      ...+-|.++.+          ++=.+.+|  -..+..-+|.|...|++.++..--.|..+..|-++-++
T Consensus        95 ~~~~PGeislA----------h~GVLflDE~~ef~~~vld~Lr~ple~g~v~i~R~~~~~~~Pa~f~lv  153 (206)
T PF01078_consen   95 RPPRPGEISLA----------HRGVLFLDELNEFDRSVLDALRQPLEDGEVTISRAGGSVTYPARFLLV  153 (206)
T ss_dssp             GGEEE-CGGGG----------TTSEEEECETTTS-HHHHHHHHHHHHHSBEEEEETTEEEEEB--EEEE
T ss_pred             cCCCcCHHHHh----------cCCEEEechhhhcCHHHHHHHHHHHHCCeEEEEECCceEEEecccEEE
Confidence            13445544332          33567888  56789999999999988766555667778888776555

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=94.42  E-value=0.12  Score=56.86  Aligned_cols=116  Identities=23%  Similarity=0.263  Sum_probs=63.9

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeC--CCCCccccccceeccccccc-ccchHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIIN--PKSITMGQLYGEFDSASHEW-RDGILAKTFREM  260 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~in--pka~t~~~l~G~~d~~~~~W-~dGil~~~~r~~  260 (367)
                      .++|.||+|+|||++.+.|++.+..-         +.++....+.  ....+...++|.. |.-... ..|.++..+|+.
T Consensus       597 ~~Lf~Gp~GvGKt~lA~~La~~l~~~---------~~~~i~~d~s~~~~~~~~~~l~g~~-~g~~g~~~~g~l~~~v~~~  666 (852)
T TIGR03346       597 SFLFLGPTGVGKTELAKALAEFLFDD---------EDAMVRIDMSEYMEKHSVARLIGAP-PGYVGYEEGGQLTEAVRRK  666 (852)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhcCC---------CCcEEEEechhhcccchHHHhcCCC-CCccCcccccHHHHHHHcC
Confidence            47789999999999999999876321         1122221111  1222334455532 110111 236777777642


Q ss_pred             hcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC
Q psy4734         261 AVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL  318 (367)
Q Consensus       261 ~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l  318 (367)
                            ...-++||  +..++.-...|-.+||+. .++-+.|..+.+.+.  +|+=|+|+
T Consensus       667 ------p~~vlllDeieka~~~v~~~Ll~~l~~g-~l~d~~g~~vd~rn~--iiI~TSn~  717 (852)
T TIGR03346       667 ------PYSVVLFDEVEKAHPDVFNVLLQVLDDG-RLTDGQGRTVDFRNT--VIIMTSNL  717 (852)
T ss_pred             ------CCcEEEEeccccCCHHHHHHHHHHHhcC-ceecCCCeEEecCCc--EEEEeCCc
Confidence                  33689999  334555555555566554 455666776766542  34445555

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.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=94.34  E-value=0.02  Score=55.72  Aligned_cols=21  Identities=29%  Similarity=0.395  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||+++++|.-
T Consensus        32 ~vllGPSGcGKSTlLr~IAGL   52 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGL   52 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            678899999999999998753

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.30  E-value=0.022  Score=51.84  Aligned_cols=21  Identities=29%  Similarity=0.438  Sum_probs=17.7

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .-+.++||+||||||++++++
T Consensus        29 evv~iiGpSGSGKSTlLRclN   49 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLN   49 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            336788999999999999865

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=94.28  E-value=0.22  Score=48.74  Aligned_cols=26  Identities=19%  Similarity=0.357  Sum_probs=21.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ..+++.||+|+|||++.+.+.+.+..
T Consensus        41 ~~i~I~G~~GtGKT~l~~~~~~~l~~   66 (365)
T TIGR02928        41 SNVFIYGKTGTGKTAVTKYVMKELEE   66 (365)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHH
Confidence            45788899999999999988877754

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.27  E-value=0.11  Score=52.44  Aligned_cols=94  Identities=23%  Similarity=0.282  Sum_probs=53.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccc------cceecccccccccchHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQL------YGEFDSASHEWRDGILAK  255 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l------~G~~d~~~~~W~dGil~~  255 (367)
                      .-++|+||+|+||||++..|+..+....       .+.+|.+...+|-.. ...+|      .|.  |....-...-+..
T Consensus       222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~-------~g~~V~li~~D~~r~~a~eqL~~~a~~~~v--p~~~~~~~~~l~~  292 (424)
T PRK05703        222 GVVALVGPTGVGKTTTLAKLAARYALLY-------GKKKVALITLDTYRIGAVEQLKTYAKIMGI--PVEVVYDPKELAK  292 (424)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhc-------CCCeEEEEECCccHHHHHHHHHHHHHHhCC--ceEccCCHHhHHH
Confidence            3578899999999999988887765221       123566655555321 11122      221  0000011112334


Q ss_pred             HHHHHhcCCCCCceEEEEcCC----CChHhhhhhhhccC
Q psy4734         256 TFREMAVSTTPDRKWIMFDGP----IDAVWIENMNTVLD  290 (367)
Q Consensus       256 ~~r~~~~~~~~~~~wivfDG~----~d~~wie~lnsvld  290 (367)
                      .+++.     ...++|++|.+    .|..-++.|..+++
T Consensus       293 ~l~~~-----~~~DlVlIDt~G~~~~d~~~~~~L~~ll~  326 (424)
T PRK05703        293 ALEQL-----RDCDVILIDTAGRSQRDKRLIEELKALIE  326 (424)
T ss_pred             HHHHh-----CCCCEEEEeCCCCCCCCHHHHHHHHHHHh
Confidence            44433     24699999954    57777888887776

>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=94.27  E-value=0.03  Score=41.41  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++|+||||+.+.|++.+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4567999999999999998877

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.

>PHA02774 E1; Provisional

Probab=94.26  E-value=0.17  Score=52.56  Aligned_cols=25  Identities=24%  Similarity=0.317  Sum_probs=20.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +..+.|.||||+|||.....|.+.+
T Consensus       434 knciv~~GPP~TGKS~fa~sL~~~L  458 (613)
T PHA02774        434 KNCLVIYGPPDTGKSMFCMSLIKFL  458 (613)
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHh
Confidence            3468899999999999987777665

>PLN02842 nucleotide kinase

Probab=94.19  E-value=0.098  Score=53.63  Aligned_cols=21  Identities=24%  Similarity=0.442  Sum_probs=18.8

Q ss_pred             eeccccCCCchhhHHHHHHHH
Q psy4734         186 MVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       186 ~~~g~~gsGKTt~~~~L~~al  206 (367)
                      |+.|++||||||..+.|++.+
T Consensus         1 ~I~G~PGSGKSTqa~~Lak~l   21 (505)
T PLN02842          1 MISGAPASGKGTQCELIVHKF   21 (505)
T ss_pred             CeeCCCCCCHHHHHHHHHHHh
Confidence            578999999999999998766

>PF13173 AAA_14: AAA domain

Probab=94.15  E-value=0.069  Score=44.31  Aligned_cols=116  Identities=21%  Similarity=0.221  Sum_probs=62.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      .-+++.||.++||||+++-+++.+.  ..        .++  ..+|-.....           ....+.-+...+++.. 
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~--~~--------~~~--~yi~~~~~~~-----------~~~~~~~~~~~~~~~~-   58 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL--PP--------ENI--LYINFDDPRD-----------RRLADPDLLEYFLELI-   58 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc--cc--------ccc--eeeccCCHHH-----------HHHhhhhhHHHHHHhh-
Confidence            4567889999999999888776543  00        011  1122211110           1111100333343331 


Q ss_pred             CCCCCceEEEEc-CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC----ccCcchhhceeeEEeccc
Q psy4734         263 STTPDRKWIMFD-GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE----FASPATVSRVGMIYFELK  337 (367)
Q Consensus       263 ~~~~~~~wivfD-G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~----~asPatvsRcg~v~~~~~  337 (367)
                        ..+..++++| -.--+.|.+.+..+.|+.              +++++++=.++..    ..+-....|+..+.|.|-
T Consensus        59 --~~~~~~i~iDEiq~~~~~~~~lk~l~d~~--------------~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Pl  122 (128)
T PF13173_consen   59 --KPGKKYIFIDEIQYLPDWEDALKFLVDNG--------------PNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPL  122 (128)
T ss_pred             --ccCCcEEEEehhhhhccHHHHHHHHHHhc--------------cCceEEEEccchHHHhhcccccCCCeEEEEEECCC
Confidence              1267899999 233467999999988853              1222333222221    234456678888888775


Q ss_pred             C
Q psy4734         338 C  338 (367)
Q Consensus       338 ~  338 (367)
                      .
T Consensus       123 s  123 (128)
T PF13173_consen  123 S  123 (128)
T ss_pred             C
Confidence            4

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.15  E-value=0.024  Score=52.59  Aligned_cols=23  Identities=26%  Similarity=0.221  Sum_probs=19.5

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -|.++|||||||||++++++.-.
T Consensus        31 fvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37788999999999999987544

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=94.03  E-value=0.077  Score=55.11  Aligned_cols=124  Identities=15%  Similarity=0.182  Sum_probs=73.5

Q ss_pred             HHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceeccc----ccccc
Q psy4734         178 IFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDSA----SHEWR  249 (367)
Q Consensus       178 ~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~~----~~~W~  249 (367)
                      .-.....|++.|++|+||+.+.+.+...+....+...  . ...-....+|+.+++    -.+|||+-+..    ...-+
T Consensus       238 ~A~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S--~-r~~~pfv~inCaal~e~lleseLFG~~~gaftga~~~~~  314 (538)
T PRK15424        238 YARSSAAVLIQGETGTGKELAAQAIHREYFARHDARQ--G-KKSHPFVAVNCGAIAESLLEAELFGYEEGAFTGSRRGGR  314 (538)
T ss_pred             HhCCCCcEEEECCCCCCHHHHHHHHHHhhcccccccC--c-cCCCCeEEeecccCChhhHHHHhcCCccccccCcccccc
Confidence            3445667999999999999998887765321111000  0 011234567888775    35678863210    01122


Q ss_pred             cchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecC
Q psy4734         250 DGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECE  316 (367)
Q Consensus       250 dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~  316 (367)
                      .|.+.          ..+.--+++|  |.+++..-..|-.+|++.....+.+..  .++-++|+|+-++
T Consensus       315 ~Gl~e----------~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e~~~~r~G~~~--~~~~dvRiIaat~  371 (538)
T PRK15424        315 AGLFE----------IAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQ--PVPVDVRVISATH  371 (538)
T ss_pred             CCchh----------ccCCCEEEEcChHhCCHHHHHHHHhhhhcCeEEecCCCc--eeccceEEEEecC
Confidence            33321          1122358888  567777777888888887766664444  4456789998763

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=94.00  E-value=0.051  Score=52.77  Aligned_cols=35  Identities=17%  Similarity=0.330  Sum_probs=29.9

Q ss_pred             hhHHHHHhhhhhheeccccCCCchhhHHHHHHHHH
Q psy4734         173 PHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       173 ~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..+..+...+..+++.|++||||||+++.|...+.
T Consensus       135 ~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~  169 (323)
T PRK13833        135 SVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIV  169 (323)
T ss_pred             HHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHh
Confidence            45778888888899999999999999998877663

>PRK03839 putative kinase; Provisional

Probab=94.00  E-value=0.032  Score=49.12  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=20.3

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ++++|+|||||||+.+.|++.++
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67889999999999999988763

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.98  E-value=0.035  Score=57.33  Aligned_cols=36  Identities=33%  Similarity=0.421  Sum_probs=25.5

Q ss_pred             hhhHHHHHhhh---hhheeccccCCCchhhHHHHHHHHH
Q psy4734         172 QPHLKKIFEVR---HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       172 q~~l~k~~~~~---~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..++...+...   .-+++.||+||||||++++|++.++
T Consensus        32 ~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg   70 (519)
T PF03215_consen   32 RSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG   70 (519)
T ss_pred             HHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            34555544332   2255679999999999999998774

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=93.96  E-value=0.093  Score=54.55  Aligned_cols=28  Identities=21%  Similarity=0.379  Sum_probs=24.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.-+.|+||+|+|||++.+.|++++...
T Consensus       103 ~~IL~LvGPpG~GKSsLa~~la~~le~~  130 (644)
T PRK15455        103 KQILYLLGPVGGGKSSLAERLKSLMERV  130 (644)
T ss_pred             CceEEEecCCCCCchHHHHHHHHHHHhC
Confidence            3446788999999999999999998765

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=93.94  E-value=0.21  Score=48.99  Aligned_cols=34  Identities=29%  Similarity=0.502  Sum_probs=24.4

Q ss_pred             hHHHHHhhhhhh-eeccccCCCchhhHHHHHHHHH
Q psy4734         174 HLKKIFEVRHGL-MVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       174 ~l~k~~~~~~~v-~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.++.....|+ ++.||+||||||+++.+...+.
T Consensus       113 ~l~~~~~~~~g~ili~G~tGSGKTT~l~al~~~i~  147 (343)
T TIGR01420       113 VLRELAERPRGLILVTGPTGSGKSTTLASMIDYIN  147 (343)
T ss_pred             HHHHHHhhcCcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            455555555554 5679999999999998776553

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=93.90  E-value=0.031  Score=48.55  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|+|||||||+.+.|++.++
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~g   25 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLG   25 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhC
Confidence            45679999999999999998763

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=93.86  E-value=0.032  Score=48.16  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||+.+.|+..+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            3578999999999999988776

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=93.85  E-value=0.036  Score=48.72  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=19.7

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++||||||+.+.|++.+
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            35678999999999999998765

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=93.82  E-value=0.13  Score=56.36  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=22.1

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..++++||||+|||++++.|+..+.
T Consensus       209 ~n~lLvG~pGvGKTal~~~La~~i~  233 (852)
T TIGR03345       209 NNPILTGEAGVGKTAVVEGLALRIA  233 (852)
T ss_pred             CceeEECCCCCCHHHHHHHHHHHHh
Confidence            5688999999999999999988764

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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=93.81  E-value=0.033  Score=48.87  Aligned_cols=23  Identities=35%  Similarity=0.369  Sum_probs=19.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++||+||||||+.+.|+..+.
T Consensus         4 ~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         4 IYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            56789999999999999887753

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>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=93.76  E-value=0.019  Score=54.51  Aligned_cols=41  Identities=32%  Similarity=0.349  Sum_probs=29.6

Q ss_pred             HHHhcCCcccchhhHHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         161 ILSETKDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       161 ils~~~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++-.+.+-.+....+..++...+.++++||+|+|||++++.
T Consensus        12 ~~VpT~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~li~~   52 (272)
T PF12775_consen   12 ILVPTVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSLIQN   52 (272)
T ss_dssp             -T---HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHHHHH
T ss_pred             EEeCcHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHHHHh
Confidence            33344444555556777888999999999999999999765

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=93.74  E-value=0.031  Score=49.64  Aligned_cols=22  Identities=23%  Similarity=0.312  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||+.+.|+..+
T Consensus         5 i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          5 IWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            5678999999999999986543

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=93.74  E-value=0.051  Score=51.85  Aligned_cols=37  Identities=27%  Similarity=0.507  Sum_probs=28.2

Q ss_pred             hhHHHHHhhhhhheec-cccCCCchhhHHHHHHHHHHH
Q psy4734         173 PHLKKIFEVRHGLMVV-GESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       173 ~~l~k~~~~~~~v~~~-g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +-+.++.+...|+++| ||+||||||++..+-..+++-
T Consensus       115 ~i~~~~~~~~~GLILVTGpTGSGKSTTlAamId~iN~~  152 (353)
T COG2805         115 PIVRELAESPRGLILVTGPTGSGKSTTLAAMIDYINKH  152 (353)
T ss_pred             HHHHHHHhCCCceEEEeCCCCCcHHHHHHHHHHHHhcc
Confidence            4466677888897776 999999999977666665543

>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=93.74  E-value=0.039  Score=46.77  Aligned_cols=22  Identities=36%  Similarity=0.469  Sum_probs=20.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ++++|++||||||+.+.|++.+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6789999999999999998876

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.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=93.67  E-value=0.048  Score=50.65  Aligned_cols=38  Identities=24%  Similarity=0.221  Sum_probs=25.0

Q ss_pred             eccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc
Q psy4734         187 VVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT  233 (367)
Q Consensus       187 ~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t  233 (367)
                      ++||+||||||..+.+.+.+....         .++.+..++|.+..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~---------~~~~~vNLDPa~~~   38 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNG---------RDVYIVNLDPAVEN   38 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT----------S-EEEEE--TT-S-
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhcc---------CCceEEEcchHhcc
Confidence            469999999999998888775432         35667778888764

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=93.67  E-value=0.033  Score=48.97  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ++++|+|||||||..+.|++.+
T Consensus         2 i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            4678999999999999888765

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.

>PRK14530 adenylate kinase; Provisional

Probab=93.63  E-value=0.04  Score=50.10  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=20.9

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .++++|+|||||||+.+.|++.++
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            367889999999999999988763

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=93.62  E-value=0.039  Score=54.07  Aligned_cols=36  Identities=25%  Similarity=0.348  Sum_probs=29.7

Q ss_pred             chhhHHHHHhhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         171 VQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       171 lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +...+..+...+..+++.|++||||||+++.|...+
T Consensus       151 ~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        151 LEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             HHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHccc
Confidence            344577778888889999999999999999887655

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

Probab=93.62  E-value=0.046  Score=53.84  Aligned_cols=127  Identities=15%  Similarity=0.157  Sum_probs=66.7

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ...++.+.||||||||.+.+.+++.++                   +++-.++.++|++.+=-++    .-.+-.+++.+
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~elg-------------------~~~i~vsa~eL~sk~vGEs----Ek~IR~~F~~A  203 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKMG-------------------IEPIVMSAGELESENAGEP----GKLIRQRYREA  203 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHcC-------------------CCeEEEEHHHhhcCcCCcH----HHHHHHHHHHH
Confidence            445677889999999999998887653                   1223345566665441111    11334444444


Q ss_pred             hcC--CCCCceEEEEcCCCChHhh---------------hhhhhccCCCCceeecccc-eeecCCCCeEEEecCCCCccC
Q psy4734         261 AVS--TTPDRKWIMFDGPIDAVWI---------------ENMNTVLDDNKKLCLINGE-IIKMSNTMNLIFECENLEFAS  322 (367)
Q Consensus       261 ~~~--~~~~~~wivfDG~~d~~wi---------------e~lnsvlddn~~l~L~~ge-~i~l~~~~~~ifE~~~l~~as  322 (367)
                      ...  ....+.-|++| ++|+.--               ..|-+++|.-....+..-- -..-.+.+.+|.=+.+....-
T Consensus       204 ~~~a~~~~aPcVLFID-EIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LD  282 (413)
T PLN00020        204 ADIIKKKGKMSCLFIN-DLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLY  282 (413)
T ss_pred             HHHhhccCCCeEEEEe-hhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCC
Confidence            332  23467888888 4443211               1111223332222221000 001234566777777788888


Q ss_pred             cchhh--ceee
Q psy4734         323 PATVS--RVGM  331 (367)
Q Consensus       323 Patvs--Rcg~  331 (367)
                      ||.+-  |.--
T Consensus       283 pALlRpGRfDk  293 (413)
T PLN00020        283 APLIRDGRMEK  293 (413)
T ss_pred             HhHcCCCCCCc
Confidence            88775  5433

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=93.58  E-value=0.11  Score=55.11  Aligned_cols=119  Identities=12%  Similarity=0.095  Sum_probs=69.5

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceeccccccccc
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDSASHEWRD  250 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~~~~~W~d  250 (367)
                      +.+.......|++.|++|+||+++.+.+.....    ..       .-....+|+.+++    ..+|||+.......-.-
T Consensus       341 ~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~----r~-------~~pfv~vnc~~~~~~~~~~elfg~~~~~~~~~~~  409 (638)
T PRK11388        341 GRQAAKSSFPVLLCGEEGVGKALLAQAIHNESE----RA-------AGPYIAVNCQLYPDEALAEEFLGSDRTDSENGRL  409 (638)
T ss_pred             HHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCC----cc-------CCCeEEEECCCCChHHHHHHhcCCCCcCccCCCC
Confidence            444455667799999999999999877654321    10       1134567888876    35789976322111122


Q ss_pred             chHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecC
Q psy4734         251 GILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECE  316 (367)
Q Consensus       251 Gil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~  316 (367)
                      |.+.    .      ...--+++|  +.++..--..|-.+|++.....+.+...  .+-.+|+|+-++
T Consensus       410 g~~~----~------a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~--~~~~~riI~~t~  465 (638)
T PRK11388        410 SKFE----L------AHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRL--IPVDVRVIATTT  465 (638)
T ss_pred             Ccee----E------CCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCce--EEeeEEEEEecc
Confidence            2211    1      112357888  4456666667777777666655543333  344678888654

>TIGR00368 Mg chelatase-related protein

Probab=93.53  E-value=0.079  Score=54.54  Aligned_cols=146  Identities=14%  Similarity=0.132  Sum_probs=82.0

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhc--c----c-----cccceeEEE-EeCCC-CCcccccccee
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS--A----T-----MKEFKTGYK-IINPK-SITMGQLYGEF  241 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~--~----~-----~~~~~v~~~-~inpk-a~t~~~l~G~~  241 (367)
                      +.-.....+.+++.||+|+|||++.+.+...+..+.....  .    +     .....+... ...|. +.+...++|.-
T Consensus       204 l~~aa~~g~~vlliG~pGsGKTtlar~l~~llp~~~~~~~le~~~i~s~~g~~~~~~~~~~~Pf~~p~~s~s~~~~~ggg  283 (499)
T TIGR00368       204 LEIAAAGGHNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWSLVGKLIDRKQIKQRPFRSPHHSASKPALVGGG  283 (499)
T ss_pred             hhhhccCCCEEEEEecCCCCHHHHHHHHhcccCCCCCcEEEeccccccchhhhccccccccCCccccccccchhhhhCCc
Confidence            3334456677999999999999999988765433221100  0    0     000000000 01111 22344444421


Q ss_pred             cccccccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC--
Q psy4734         242 DSASHEWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN--  317 (367)
Q Consensus       242 d~~~~~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~--  317 (367)
                          ...+.|.++.          .+.-.+++|  -.++..-.+.|...|++.....-..|..+..+.++++|.-++.  
T Consensus       284 ----~~~~pG~i~l----------A~~GvLfLDEi~e~~~~~~~~L~~~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcp  349 (499)
T TIGR00368       284 ----PIPLPGEISL----------AHNGVLFLDELPEFKRSVLDALREPIEDGSISISRASAKIFYPARFQLVAAMNPCP  349 (499)
T ss_pred             ----cccchhhhhc----------cCCCeEecCChhhCCHHHHHHHHHHHHcCcEEEEecCcceeccCCeEEEEecCCcc
Confidence                1123443321          122467778  3456777888888887765433344555778889999988764  


Q ss_pred             ---------------------CCccCcchhhceeeEEe
Q psy4734         318 ---------------------LEFASPATVSRVGMIYF  334 (367)
Q Consensus       318 ---------------------l~~asPatvsRcg~v~~  334 (367)
                                           +...|+..+.|..+...
T Consensus       350 cg~~~~~~~~c~c~~~~~~~y~~~is~pllDR~dl~~~  387 (499)
T TIGR00368       350 CGHYGGKNTHCRCSPQQISRYWNKLSGPFLDRIDLSVE  387 (499)
T ss_pred             cCcCCCCcccccCCHHHHHHHhhhccHhHHhhCCEEEE
Confidence                                 22588888899998753

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

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=93.50  E-value=0.21  Score=49.32  Aligned_cols=33  Identities=18%  Similarity=0.379  Sum_probs=23.9

Q ss_pred             HHHHHhhhhh-heeccccCCCchhhHHHHHHHHH
Q psy4734         175 LKKIFEVRHG-LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       175 l~k~~~~~~~-v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.+....| +.++||+||||||+++.|...+.
T Consensus       126 ~~~~~~~~~glilI~GpTGSGKTTtL~aLl~~i~  159 (358)
T TIGR02524       126 IIDAIAPQEGIVFITGATGSGKSTLLAAIIRELA  159 (358)
T ss_pred             HHHHHhccCCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4444443445 56679999999999998877664

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=93.48  E-value=0.054  Score=39.43  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.|++|+||||++..+.-++
T Consensus        26 tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   26 TLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999988876655

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

Probab=93.45  E-value=0.052  Score=55.01  Aligned_cols=122  Identities=16%  Similarity=0.231  Sum_probs=75.4

Q ss_pred             hHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcc----ccccceecccccccc
Q psy4734         174 HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITM----GQLYGEFDSASHEWR  249 (367)
Q Consensus       174 ~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~----~~l~G~~d~~~~~W~  249 (367)
                      .+.++-.+...|++.|++|+||-.+.+.+.    ..+.+..    +   ....+|+.|++-    .||||.-   .+.++
T Consensus       156 ~i~kvA~s~a~VLI~GESGtGKElvAr~IH----~~S~R~~----~---PFVavNcaAip~~l~ESELFGhe---kGAFT  221 (464)
T COG2204         156 LIAKVAPSDASVLITGESGTGKELVARAIH----QASPRAK----G---PFIAVNCAAIPENLLESELFGHE---KGAFT  221 (464)
T ss_pred             HHHHHhCCCCCEEEECCCCCcHHHHHHHHH----hhCcccC----C---CceeeecccCCHHHHHHHhhccc---ccCcC
Confidence            355666778889999999999998866544    4443321    1   244589999983    4689952   22222


Q ss_pred             cchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEec
Q psy4734         250 DGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFEC  315 (367)
Q Consensus       250 dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~  315 (367)
                      .+.-    |+...-+..+.=-+++|  |++...-=-.|-.+|.+...-.+.+...|++  .+|+|--|
T Consensus       222 GA~~----~r~G~fE~A~GGTLfLDEI~~mpl~~Q~kLLRvLqe~~~~rvG~~~~i~v--dvRiIaaT  283 (464)
T COG2204         222 GAIT----RRIGRFEQANGGTLFLDEIGEMPLELQVKLLRVLQEREFERVGGNKPIKV--DVRIIAAT  283 (464)
T ss_pred             Cccc----ccCcceeEcCCceEEeeccccCCHHHHHHHHHHHHcCeeEecCCCcccce--eeEEEeec
Confidence            2210    11111122233457788  7777666667777888887778876665554  68888654

>PRK06851 hypothetical protein; Provisional

Probab=93.42  E-value=1.1  Score=44.38  Aligned_cols=43  Identities=16%  Similarity=0.226  Sum_probs=29.7

Q ss_pred             cCCcccchhhHHHHHhh-hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         165 TKDPLRVQPHLKKIFEV-RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       165 ~~~~~~lq~~l~k~~~~-~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.-|.....++..+.+. .+-+++.|+||+||||+++.++.++.
T Consensus       196 a~Tp~G~~s~~~~l~~~~~~~~~i~G~pG~GKstl~~~i~~~a~  239 (367)
T PRK06851        196 AITPKGAVDFVPSLTEGVKNRYFLKGRPGTGKSTMLKKIAKAAE  239 (367)
T ss_pred             ccCCCcHHhhHHhHhcccceEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            44445555555555544 34467789999999999998887664

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=93.40  E-value=0.047  Score=53.30  Aligned_cols=35  Identities=17%  Similarity=0.278  Sum_probs=29.2

Q ss_pred             hhhHHHHHhhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         172 QPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       172 q~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...+..+...+..++++|++||||||+++.|...+
T Consensus       150 ~~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~i  184 (332)
T PRK13900        150 KEFLEHAVISKKNIIISGGTSTGKTTFTNAALREI  184 (332)
T ss_pred             HHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhC
Confidence            34577778888889999999999999998877655

>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=93.38  E-value=0.16  Score=44.16  Aligned_cols=25  Identities=36%  Similarity=0.300  Sum_probs=20.5

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      ++++|++|+||||+...++..+...
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            4577999999999999888776543

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=93.37  E-value=0.048  Score=47.14  Aligned_cols=24  Identities=29%  Similarity=0.350  Sum_probs=21.1

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.++|++||||||+.+.|++.+
T Consensus         5 ~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          5 PNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            357788999999999999998876

>PRK06762 hypothetical protein; Provisional

Probab=93.37  E-value=0.048  Score=47.19  Aligned_cols=22  Identities=36%  Similarity=0.530  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus         5 i~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          5 IIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999988776

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=93.30  E-value=0.088  Score=55.89  Aligned_cols=138  Identities=21%  Similarity=0.246  Sum_probs=79.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhh---------------------ccccccceeEEEEeCCCCCcccccccee
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKK---------------------SATMKEFKTGYKIINPKSITMGQLYGEF  241 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~---------------------~~~~~~~~v~~~~inpka~t~~~l~G~~  241 (367)
                      .+++|.|++|+|||++.+.|+..+-.+....                     ....+..+..+..+ |-..+.+.|+|..
T Consensus        26 g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~~~~~~~~~~~~~~~~pfv~~-p~~~t~~~l~G~~  104 (633)
T TIGR02442        26 GGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWCEECRRKYRPSEQRPVPFVNL-PLGATEDRVVGSL  104 (633)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccChhhhhcccccccCCCCeeeC-CCCCcHHHcCCcc
Confidence            5699999999999999999988763211000                     00000001112222 4556778899987


Q ss_pred             ccc----ccc--cccchHHHHHHHHhcCCCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecccceeecCCCCeEEE
Q psy4734         242 DSA----SHE--WRDGILAKTFREMAVSTTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIF  313 (367)
Q Consensus       242 d~~----~~~--W~dGil~~~~r~~~~~~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~if  313 (367)
                      |..    +++  ..-|++..          .+.--+++|.  .+++.-.+.|-.+|++...-.-..|.....+..+.+|.
T Consensus       105 d~~~~l~~g~~~~~~G~L~~----------A~~GiL~lDEi~~l~~~~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIa  174 (633)
T TIGR02442       105 DIERALREGEKAFQPGLLAE----------AHRGILYIDEVNLLDDHLVDVLLDAAAMGVNRVEREGLSVSHPARFVLIG  174 (633)
T ss_pred             cHHHHhhcCCeeecCcceee----------cCCCeEEeChhhhCCHHHHHHHHHHHhcCCEEEEECCceeeecCCeEEEE
Confidence            642    112  22333321          1234677772  24555556666666665433334566677777776666


Q ss_pred             ecCCCC--ccCcchhhceeeE
Q psy4734         314 ECENLE--FASPATVSRVGMI  332 (367)
Q Consensus       314 E~~~l~--~asPatvsRcg~v  332 (367)
                       +.|..  ..+|+...|+++.
T Consensus       175 -t~np~eg~l~~~L~dR~~l~  194 (633)
T TIGR02442       175 -TMNPEEGDLRPQLLDRFGLC  194 (633)
T ss_pred             -ecCCCCCCCCHHHHhhcceE
Confidence             55543  4678999999863

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.

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=93.30  E-value=0.35  Score=46.28  Aligned_cols=71  Identities=11%  Similarity=0.224  Sum_probs=50.7

Q ss_pred             CCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccCCchHHH
Q psy4734         265 TPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTF  344 (367)
Q Consensus       265 ~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~~~~~~~  344 (367)
                      ...+|.+|+| +.|..-.+.-|++|-   +     =|  ..|++..||+-+.+....-|..+|||-.+++.+.    ...
T Consensus       102 ~~~~kV~II~-~ad~m~~~AaNaLLK---t-----LE--EPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~~----~~~  166 (290)
T PRK07276        102 EGKQQVFIIK-DADKMHVNAANSLLK---V-----IE--EPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPKN----EAY  166 (290)
T ss_pred             cCCcEEEEee-hhhhcCHHHHHHHHH---H-----hc--CCCCCeEEEEEECChhhCchHHHHcceeeeCCCc----HHH
Confidence            3457899999 666666666676651   1     11  2355677899999999999999999999999763    345


Q ss_pred             HHHHHH
Q psy4734         345 FLSYQN  350 (367)
Q Consensus       345 ~~swl~  350 (367)
                      +..|+.
T Consensus       167 ~~~~L~  172 (290)
T PRK07276        167 LIQLLE  172 (290)
T ss_pred             HHHHHH
Confidence            556664

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=93.27  E-value=0.042  Score=50.50  Aligned_cols=21  Identities=33%  Similarity=0.358  Sum_probs=17.7

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      -+.++||+||||||+++++..
T Consensus        33 ~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            366789999999999988664

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=93.26  E-value=0.1  Score=54.18  Aligned_cols=155  Identities=16%  Similarity=0.191  Sum_probs=87.8

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecc----ccc
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDS----ASH  246 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~----~~~  246 (367)
                      +.+.-.....|++.|++|+||+.+.+.+...    +...       .-....+|+.+++    -.+|||+-..    ...
T Consensus       228 i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~----S~r~-------~~pfv~inC~~l~e~lleseLFG~~~gaftga~~  296 (526)
T TIGR02329       228 VRLYARSDATVLILGESGTGKELVAQAIHQL----SGRR-------DFPFVAINCGAIAESLLEAELFGYEEGAFTGARR  296 (526)
T ss_pred             HHHHhCCCCcEEEECCCCcCHHHHHHHHHHh----cCcC-------CCCEEEeccccCChhHHHHHhcCCcccccccccc
Confidence            3344456678999999999999997776542    1111       1124568888775    3467886321    001


Q ss_pred             ccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-CCccCc
Q psy4734         247 EWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-LEFASP  323 (367)
Q Consensus       247 ~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-l~~asP  323 (367)
                      .-..|++.    .      .+.--+++|  |.++...-..|-.+|.+.....+.+..  ..+.++|+|+-++. |.....
T Consensus       297 ~~~~Gl~e----~------A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~--~~~~dvRiIaat~~~l~~~v~  364 (526)
T TIGR02329       297 GGRTGLIE----A------AHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTE--PVPVDVRVVAATHCALTTAVQ  364 (526)
T ss_pred             cccccchh----h------cCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCc--eeeecceEEeccCCCHHHHhh
Confidence            12223221    1      122348888  567777777888888887776665444  34557888886532 332211


Q ss_pred             ------chhhc--eeeEEecccC---CchHHHHHHHHHHh
Q psy4734         324 ------ATVSR--VGMIYFELKC---ISWTTFFLSYQNEL  352 (367)
Q Consensus       324 ------atvsR--cg~v~~~~~~---~~~~~~~~swl~~~  352 (367)
                            ...-|  +..|++.|-.   =...+++..+++..
T Consensus       365 ~g~fr~dL~~rL~~~~I~lPPLReR~eDI~~L~~~fl~~~  404 (526)
T TIGR02329       365 QGRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQA  404 (526)
T ss_pred             hcchhHHHHHhcCCcEEeCCCchhchhHHHHHHHHHHHHH
Confidence                  22223  3455565521   12456666776654

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.

>PRK13949 shikimate kinase; Provisional

Probab=93.26  E-value=0.039  Score=48.38  Aligned_cols=24  Identities=38%  Similarity=0.380  Sum_probs=21.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.++|++|+||||+.+.|++.++
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            478899999999999999998763

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=93.21  E-value=0.052  Score=48.13  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+||+||||..+.|++.+
T Consensus         3 iiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           3 ILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999988874

>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=93.21  E-value=0.084  Score=50.01  Aligned_cols=24  Identities=29%  Similarity=0.461  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ++++|.|||||||..+.|++.+..
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~~   27 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLEE   27 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHh
Confidence            567899999999999999988866

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=93.18  E-value=0.04  Score=46.79  Aligned_cols=22  Identities=41%  Similarity=0.552  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|++||||||+.+.|++.+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            4578999999999999988764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK13947 shikimate kinase; Provisional

Probab=93.14  E-value=0.046  Score=47.47  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=21.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.++|++||||||+.+.|++.++
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg   26 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLS   26 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            477889999999999999998874

>KOG2028|consensus

Probab=93.11  E-value=0.1  Score=51.13  Aligned_cols=128  Identities=21%  Similarity=0.248  Sum_probs=69.4

Q ss_pred             HHHHHhh--hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccch
Q psy4734         175 LKKIFEV--RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGI  252 (367)
Q Consensus       175 l~k~~~~--~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGi  252 (367)
                      +.+.++.  ..++++-||||+||||+.+.++..-..-             .|..|.-.|.+.         .+.+ ..|+
T Consensus       153 lrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~-------------SyrfvelSAt~a---------~t~d-vR~i  209 (554)
T KOG2028|consen  153 LRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKH-------------SYRFVELSATNA---------KTND-VRDI  209 (554)
T ss_pred             HHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCC-------------ceEEEEEecccc---------chHH-HHHH
Confidence            4444432  2446677999999999999877542110             122121111110         0111 1123


Q ss_pred             HHHHHHHHhcCCCCCceEEE-EcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceee
Q psy4734         253 LAKTFREMAVSTTPDRKWIM-FDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGM  331 (367)
Q Consensus       253 l~~~~r~~~~~~~~~~~wiv-fDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~  331 (367)
                      +...-+..   .-.+++-|+ +|      =|..+|-.-.|.-+-.+-+|+++.+.-..    |-- --+.--|.+|||-+
T Consensus       210 fe~aq~~~---~l~krkTilFiD------EiHRFNksQQD~fLP~VE~G~I~lIGATT----ENP-SFqln~aLlSRC~V  275 (554)
T KOG2028|consen  210 FEQAQNEK---SLTKRKTILFID------EIHRFNKSQQDTFLPHVENGDITLIGATT----ENP-SFQLNAALLSRCRV  275 (554)
T ss_pred             HHHHHHHH---hhhcceeEEEeH------HhhhhhhhhhhcccceeccCceEEEeccc----CCC-ccchhHHHHhccce
Confidence            33222221   123444444 45      35677887777767777888888775432    111 12334579999999


Q ss_pred             EEecccCC
Q psy4734         332 IYFELKCI  339 (367)
Q Consensus       332 v~~~~~~~  339 (367)
                      +.+++-.+
T Consensus       276 fvLekL~~  283 (554)
T KOG2028|consen  276 FVLEKLPV  283 (554)
T ss_pred             eEeccCCH
Confidence            99987654

>PRK08233 hypothetical protein; Provisional

Probab=93.05  E-value=0.046  Score=47.72  Aligned_cols=23  Identities=35%  Similarity=0.436  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++++.
T Consensus         6 I~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          6 ITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            44569999999999999988763

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=93.04  E-value=0.07  Score=48.32  Aligned_cols=25  Identities=32%  Similarity=0.367  Sum_probs=21.9

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +++.|+|||||||..+-|+++|.+-
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHHHh
Confidence            5678999999999999999998653

>PRK14531 adenylate kinase; Provisional

Probab=93.01  E-value=0.051  Score=48.10  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=20.1

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+++.|+|||||||..+.|++.+
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36788999999999999988775

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=93.01  E-value=0.051  Score=49.49  Aligned_cols=22  Identities=27%  Similarity=0.253  Sum_probs=18.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-++||+||||||.++++....
T Consensus        36 TAlIGPSGcGKST~LR~lNRmn   57 (253)
T COG1117          36 TALIGPSGCGKSTLLRCLNRMN   57 (253)
T ss_pred             EEEECCCCcCHHHHHHHHHhhc
Confidence            4467999999999999876543

>PRK14532 adenylate kinase; Provisional

Probab=93.01  E-value=0.045  Score=48.43  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||..+.|++.+
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6788999999999999988765

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=92.97  E-value=0.092  Score=50.95  Aligned_cols=34  Identities=18%  Similarity=0.354  Sum_probs=28.9

Q ss_pred             hhHHHHHhhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         173 PHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       173 ~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+..++..+..++++|++||||||+.+.|...+
T Consensus       139 ~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        139 EAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             HHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            4577778888889999999999999999888665

>KOG0991|consensus

Probab=92.96  E-value=0.061  Score=49.57  Aligned_cols=25  Identities=36%  Similarity=0.399  Sum_probs=21.7

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.-+++.||||+||||++.+|+..|
T Consensus        48 mP~liisGpPG~GKTTsi~~LAr~L   72 (333)
T KOG0991|consen   48 MPNLIISGPPGTGKTTSILCLAREL   72 (333)
T ss_pred             CCceEeeCCCCCchhhHHHHHHHHH
Confidence            3447788999999999999999877

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

Probab=92.94  E-value=0.042  Score=56.17  Aligned_cols=117  Identities=15%  Similarity=0.212  Sum_probs=75.0

Q ss_pred             HHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecccccccccchH
Q psy4734         178 IFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDSASHEWRDGIL  253 (367)
Q Consensus       178 ~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~~~~~W~dGil  253 (367)
                      .-....+|++.|++|+||....+.    +...+.+..    +   ....+|+.|++    =.+|||+-        .|.|
T Consensus       264 ~A~tdstVLi~GESGTGKElfA~~----IH~~S~R~~----~---PFIaiNCaAiPe~LlESELFGye--------~GAF  324 (560)
T COG3829         264 IAKTDSTVLILGESGTGKELFARA----IHNLSPRAN----G---PFIAINCAAIPETLLESELFGYE--------KGAF  324 (560)
T ss_pred             hcCCCCcEEEecCCCccHHHHHHH----HHhcCcccC----C---CeEEEecccCCHHHHHHHHhCcC--------Cccc
Confidence            334667799999999999877554    444443321    1   23458999987    57889973        3444


Q ss_pred             HHHHHHHhc--CCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEec
Q psy4734         254 AKTFREMAV--STTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFEC  315 (367)
Q Consensus       254 ~~~~r~~~~--~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~  315 (367)
                      +=+.+.+..  -+-.+.=-+.+|  |++...-=--|-.||.+.....+.+-+-++.  .+|+|=-|
T Consensus       325 TGA~~~GK~GlfE~A~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~v--DVRIIAAT  388 (560)
T COG3829         325 TGASKGGKPGLFELANGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPV--DVRIIAAT  388 (560)
T ss_pred             cccccCCCCcceeeccCCeEEehhhccCCHHHHHHHHHHHhhceEEecCCCCceee--EEEEEecc
Confidence            444442211  111223457888  7777776667777889988888877775554  68887554

>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=92.91  E-value=0.066  Score=47.15  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=21.4

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .++|.||+|+|||.+.+.|++.+.
T Consensus         5 ~~ll~GpsGvGKT~la~~la~~l~   28 (171)
T PF07724_consen    5 NFLLAGPSGVGKTELAKALAELLF   28 (171)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            467899999999999999998875

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 ....

>smart00350 MCM minichromosome maintenance proteins

Probab=92.91  E-value=0.32  Score=50.32  Aligned_cols=137  Identities=10%  Similarity=0.177  Sum_probs=74.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEE-eCCCC--Cccccccceecccccccc--cchHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKI-INPKS--ITMGQLYGEFDSASHEWR--DGILAKTFR  258 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~-inpka--~t~~~l~G~~d~~~~~W~--dGil~~~~r  258 (367)
                      -++++|+||+|||++.+.+++....             ..++. ..+.+  ++...+   .++.+++|.  -|.+.    
T Consensus       238 ~vLL~G~pGtGKs~lar~l~~~~~r-------------~~~~~~~~~~~~~l~~~~~---~~~~~g~~~~~~G~l~----  297 (509)
T smart00350      238 NILLLGDPGTAKSQLLKYVEKTAPR-------------AVYTTGKGSSAVGLTAAVT---RDPETREFTLEGGALV----  297 (509)
T ss_pred             eEEEeCCCChhHHHHHHHHHHHcCc-------------ceEcCCCCCCcCCccccce---EccCcceEEecCccEE----
Confidence            4899999999999999987765321             01111 01111  221111   233344443  22211    


Q ss_pred             HHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeec-ccceeecCCCCeEEEecCCCC-------------ccC
Q psy4734         259 EMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLI-NGEIIKMSNTMNLIFECENLE-------------FAS  322 (367)
Q Consensus       259 ~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~-~ge~i~l~~~~~~ifE~~~l~-------------~as  322 (367)
                            ..+.--+++|  ..+++.--..|..+|++. .+++. .|....++..+++|--+.-..             ..+
T Consensus       298 ------~A~~Gil~iDEi~~l~~~~q~~L~e~me~~-~i~i~k~G~~~~l~~~~~viAa~NP~~g~y~~~~~~~~n~~l~  370 (509)
T smart00350      298 ------LADNGVCCIDEFDKMDDSDRTAIHEAMEQQ-TISIAKAGITTTLNARCSVLAAANPIGGRYDPKLTPEENIDLP  370 (509)
T ss_pred             ------ecCCCEEEEechhhCCHHHHHHHHHHHhcC-EEEEEeCCEEEEecCCcEEEEEeCCCCcccCCCcChhhccCCC
Confidence                  1122455666  123444445556666543 44443 466677887887775544331             689


Q ss_pred             cchhhceeeEEec--ccCCchHHHHHH
Q psy4734         323 PATVSRVGMIYFE--LKCISWTTFFLS  347 (367)
Q Consensus       323 PatvsRcg~v~~~--~~~~~~~~~~~s  347 (367)
                      |+.+||-.|+++-  ..+-.+..-+..
T Consensus       371 ~~lLsRFdLi~~~~d~~~~~~d~~i~~  397 (509)
T smart00350      371 APILSRFDLLFVVLDEVDEERDRELAK  397 (509)
T ss_pred             hHHhCceeeEEEecCCCChHHHHHHHH
Confidence            9999999997763  334445444433

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=92.90  E-value=0.061  Score=48.07  Aligned_cols=22  Identities=32%  Similarity=0.439  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|+..+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999998876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=92.88  E-value=0.053  Score=48.45  Aligned_cols=25  Identities=36%  Similarity=0.359  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      |.+.|++||||||+.+.|+..++..
T Consensus         2 IgI~G~sgSGKTTla~~L~~~L~~~   26 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQILNKR   26 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCcc
Confidence            3567999999999999999888643

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>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=92.86  E-value=0.056  Score=45.31  Aligned_cols=22  Identities=32%  Similarity=0.419  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4678999999999999988766

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=92.84  E-value=0.051  Score=46.42  Aligned_cols=22  Identities=41%  Similarity=0.510  Sum_probs=18.4

Q ss_pred             hhheeccccCCCchhhHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +-+|++|++||||||+.+.|..
T Consensus         2 krimliG~~g~GKTTL~q~L~~   23 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNG   23 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcC
Confidence            4589999999999999877653

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=92.84  E-value=0.063  Score=47.08  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||+.+.|++.+
T Consensus         5 i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           5 IILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            5678999999999999988765

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=92.81  E-value=0.073  Score=43.71  Aligned_cols=28  Identities=32%  Similarity=0.347  Sum_probs=20.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      ...+++.|++|+|||++++.+...+...
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~   31 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAE   31 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHh
Confidence            3456788999999999999988776543

>KOG0745|consensus

Probab=92.76  E-value=0.1  Score=52.00  Aligned_cols=85  Identities=22%  Similarity=0.361  Sum_probs=53.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      ...++++||+|||||.+.++||+.++              |.+..-++-++|..-+.|.       =.+.++.+++..+.
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ld--------------VPfaIcDcTtLTQAGYVGe-------DVEsvi~KLl~~A~  284 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLD--------------VPFAICDCTTLTQAGYVGE-------DVESVIQKLLQEAE  284 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhC--------------CCeEEecccchhhcccccc-------cHHHHHHHHHHHcc
Confidence            35688899999999999999988773              4444445556665544442       24567888887764


Q ss_pred             cC-CCCCceEEEEcCCCChH--hhhhhhhc
Q psy4734         262 VS-TTPDRKWIMFDGPIDAV--WIENMNTV  288 (367)
Q Consensus       262 ~~-~~~~~~wivfDG~~d~~--wie~lnsv  288 (367)
                      -. +...+-++++| .+|-.  -.|.+|+.
T Consensus       285 ~nVekAQqGIVflD-EvDKi~~~~~~i~~~  313 (564)
T KOG0745|consen  285 YNVEKAQQGIVFLD-EVDKITKKAESIHTS  313 (564)
T ss_pred             CCHHHHhcCeEEEe-hhhhhcccCcccccc
Confidence            33 22233456666 66543  34555554

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=92.73  E-value=0.063  Score=51.21  Aligned_cols=29  Identities=24%  Similarity=0.249  Sum_probs=24.4

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIA  210 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~  210 (367)
                      ..+++|.||||+|||++.+.++..+..+.
T Consensus        58 ~~~vll~G~pGTGKT~lA~~ia~~l~~~g   86 (284)
T TIGR02880        58 TLHMSFTGNPGTGKTTVALRMAQILHRLG   86 (284)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence            34688999999999999999998887653

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.

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=92.73  E-value=0.056  Score=50.49  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=19.1

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++|||||||||+++++..-+
T Consensus        28 ef~vliGpSGsGKTTtLkMINrLi   51 (309)
T COG1125          28 EFLVLIGPSGSGKTTTLKMINRLI   51 (309)
T ss_pred             eEEEEECCCCCcHHHHHHHHhccc
Confidence            335678999999999999976544

>PRK02496 adk adenylate kinase; Provisional

Probab=92.65  E-value=0.071  Score=47.04  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||+.+.|++.+
T Consensus         4 i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          4 LIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6778999999999999998776

>COG1084 Predicted GTPase [General function prediction only]

Probab=92.62  E-value=0.46  Score=45.85  Aligned_cols=71  Identities=25%  Similarity=0.383  Sum_probs=47.4

Q ss_pred             hhcCCCccchhhhHHHHHHHhHhhhhhhhhhhcccCCCceeecchHHHHHHHHhcCCcccchhhHHHH--Hh-hhhhhee
Q psy4734         111 LSETKDPLRVQPHLKKIFEASMALISGLVATLNLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKI--FE-VRHGLMV  187 (367)
Q Consensus       111 l~~~~~~~~i~~~l~k~f~~i~~l~~~l~~~~~~~~fprf~f~s~~~Ll~ils~~~~~~~lq~~l~k~--~~-~~~~v~~  187 (367)
                      |..+++|.....-.+.-|.-+.++...+.+++   .|              +.      .+..||.++  ++ ...++++
T Consensus       117 lk~a~~~~~~~~lrR~a~GR~aSiik~i~~~L---~f--------------L~------~~r~~l~~LP~Idp~~pTivV  173 (346)
T COG1084         117 LKAAKDPKEANQLRRQAFGRVASIIKKIDDDL---EF--------------LR------KARDHLKKLPAIDPDLPTIVV  173 (346)
T ss_pred             HhcCCChhHHHHHHHHHHHHHHHHHHHhhHHH---HH--------------HH------HHHHHHhcCCCCCCCCCeEEE
Confidence            33477888888888888888888876655544   11              11      122345544  23 4466888


Q ss_pred             ccccCCCchhhHHHHHH
Q psy4734         188 VGESFGGKTTAYQTLAD  204 (367)
Q Consensus       188 ~g~~gsGKTt~~~~L~~  204 (367)
                      .|.|+.||||+.+.+..
T Consensus       174 aG~PNVGKSSlv~~lT~  190 (346)
T COG1084         174 AGYPNVGKSSLVRKLTT  190 (346)
T ss_pred             ecCCCCcHHHHHHHHhc
Confidence            89999999999877543

>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=92.59  E-value=0.058  Score=47.66  Aligned_cols=22  Identities=27%  Similarity=0.428  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||+.+.|++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            5678999999999999988765

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=92.59  E-value=0.07  Score=48.14  Aligned_cols=22  Identities=36%  Similarity=0.434  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|+..+
T Consensus         9 I~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          9 IGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999998876

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=92.56  E-value=0.79  Score=44.10  Aligned_cols=138  Identities=12%  Similarity=0.157  Sum_probs=79.3

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ..|..+|.|+.|.||++..+.++.++.-.... .            +++..  .+.-+-.+|+...    .+-..-+|+.
T Consensus        17 l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~-~------------~~~~~--~p~n~~~~d~~g~----~i~vd~Ir~l   77 (299)
T PRK07132         17 ISHSFLLKSNYNEDIDEKILYFLNKFNNLQIT-N------------LNEQE--LPANIILFDIFDK----DLSKSEFLSA   77 (299)
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCC-C------------CCCCC--CCcceEEeccCCC----cCCHHHHHHH
Confidence            45778899999999999999998877321100 0            11110  0111111221110    0111223333


Q ss_pred             hc----C--CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEe
Q psy4734         261 AV----S--TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYF  334 (367)
Q Consensus       261 ~~----~--~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~  334 (367)
                      ..    .  +..++|-+|+|+. |..-.+..|++|.-     |   |  ..|++.-+||-+++....-|+..|||-++.+
T Consensus        78 ~~~~~~~~~~~~~~KvvII~~~-e~m~~~a~NaLLK~-----L---E--EPp~~t~~il~~~~~~kll~TI~SRc~~~~f  146 (299)
T PRK07132         78 INKLYFSSFVQSQKKILIIKNI-EKTSNSLLNALLKT-----I---E--EPPKDTYFLLTTKNINKVLPTIVSRCQVFNV  146 (299)
T ss_pred             HHHhccCCcccCCceEEEEecc-cccCHHHHHHHHHH-----h---h--CCCCCeEEEEEeCChHhChHHHHhCeEEEEC
Confidence            22    2  2358899999963 44444455554421     1   1  2567788888888888888888999999999


Q ss_pred             cccCCchHHHHHHHHHH
Q psy4734         335 ELKCISWTTFFLSYQNE  351 (367)
Q Consensus       335 ~~~~~~~~~~~~swl~~  351 (367)
                      .+-.   ..-+..||..
T Consensus       147 ~~l~---~~~l~~~l~~  160 (299)
T PRK07132        147 KEPD---QQKILAKLLS  160 (299)
T ss_pred             CCCC---HHHHHHHHHH
Confidence            8754   2455666654

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=92.46  E-value=0.1  Score=42.07  Aligned_cols=25  Identities=28%  Similarity=0.279  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      |.+.|++|+|||++.+.|+..+..-
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~   25 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKH   25 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHH
Confidence            4678999999999999998877644

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

>PRK05541 adenylylsulfate kinase; Provisional

Probab=92.45  E-value=0.084  Score=46.23  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=20.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.+.|++||||||+.+.|+..+.
T Consensus         9 ~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          9 VIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            366789999999999999888775

>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=92.41  E-value=0.087  Score=47.46  Aligned_cols=25  Identities=36%  Similarity=0.317  Sum_probs=20.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      -++++||+|+||||++--|+..+..
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~   27 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKL   27 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhh
Confidence            3678999999999998888876643

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 ....

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

Probab=92.39  E-value=0.14  Score=51.14  Aligned_cols=140  Identities=16%  Similarity=0.209  Sum_probs=84.7

Q ss_pred             hHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecc---ccc
Q psy4734         174 HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDS---ASH  246 (367)
Q Consensus       174 ~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~---~~~  246 (367)
                      +++..-.....|++.|++|+||+.+.+.+. ++..-..       ..  ....+|+.+++    -.+|||.---   ...
T Consensus        93 qik~~ap~~~~vLi~GetGtGKel~A~~iH-~~s~r~~-------~~--PFI~~NCa~~~en~~~~eLFG~~kGaftGa~  162 (403)
T COG1221          93 QIKAYAPSGLPVLIIGETGTGKELFARLIH-ALSARRA-------EA--PFIAFNCAAYSENLQEAELFGHEKGAFTGAQ  162 (403)
T ss_pred             HHHhhCCCCCcEEEecCCCccHHHHHHHHH-Hhhhccc-------CC--CEEEEEHHHhCcCHHHHHHhccccceeeccc
Confidence            444444456679999999999999988877 2221100       11  13457877775    3347884200   011


Q ss_pred             ccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-CCccCc
Q psy4734         247 EWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-LEFASP  323 (367)
Q Consensus       247 ~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-l~~asP  323 (367)
                      +=+-|+|.          .-+.--+.+|  |++.+.--|.|-.+||+.-.-.+.+  .-+.+.++|+++-|+. +..+--
T Consensus       163 ~~k~Glfe----------~A~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~--~~~~~~dVRli~AT~~~l~~~~~  230 (403)
T COG1221         163 GGKAGLFE----------QANGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGG--SQPRPVDVRLICATTEDLEEAVL  230 (403)
T ss_pred             CCcCchhe----------ecCCCEEehhhhhhCCHhHHHHHHHHHHcCceEecCC--CCCcCCCceeeeccccCHHHHHH
Confidence            11222221          1122567777  7778888888999999887777754  5678889999999865 333322


Q ss_pred             c--hhhc-eeeEEec
Q psy4734         324 A--TVSR-VGMIYFE  335 (367)
Q Consensus       324 a--tvsR-cg~v~~~  335 (367)
                      +  +.-| +..+.+.
T Consensus       231 ~g~dl~~rl~~~~I~  245 (403)
T COG1221         231 AGADLTRRLNILTIT  245 (403)
T ss_pred             hhcchhhhhcCceec
Confidence            3  5555 6665554

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=92.35  E-value=0.073  Score=44.97  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=18.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||+.+.|++.+
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            4578999999999999887654

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.25  E-value=0.25  Score=49.10  Aligned_cols=95  Identities=16%  Similarity=0.133  Sum_probs=52.4

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc-cccc------cce-ecccccccccchH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT-MGQL------YGE-FDSASHEWRDGIL  253 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t-~~~l------~G~-~d~~~~~W~dGil  253 (367)
                      ..-++++||+|+||||++..|+..+...         +.+|.+...+|-... ..+|      .|. +-..   =...-+
T Consensus       206 ~~ii~lvGptGvGKTTt~akLA~~l~~~---------g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~---~dp~dL  273 (407)
T PRK12726        206 HRIISLIGQTGVGKTTTLVKLGWQLLKQ---------NRTVGFITTDTFRSGAVEQFQGYADKLDVELIVA---TSPAEL  273 (407)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc---------CCeEEEEeCCccCccHHHHHHHHhhcCCCCEEec---CCHHHH
Confidence            3447789999999999988888654221         234555555554331 1122      221 0000   011123


Q ss_pred             HHHHHHHhcCCCCCceEEEEcCC----CChHhhhhhhhccC
Q psy4734         254 AKTFREMAVSTTPDRKWIMFDGP----IDAVWIENMNTVLD  290 (367)
Q Consensus       254 ~~~~r~~~~~~~~~~~wivfDG~----~d~~wie~lnsvld  290 (367)
                      ..+++.+..  ......|++|.+    .|..+++-|..+++
T Consensus       274 ~~al~~l~~--~~~~D~VLIDTAGr~~~d~~~l~EL~~l~~  312 (407)
T PRK12726        274 EEAVQYMTY--VNCVDHILIDTVGRNYLAEESVSEISAYTD  312 (407)
T ss_pred             HHHHHHHHh--cCCCCEEEEECCCCCccCHHHHHHHHHHhh
Confidence            334443321  134589999944    57889988887665

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=92.22  E-value=0.067  Score=43.40  Aligned_cols=21  Identities=33%  Similarity=0.389  Sum_probs=17.9

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ..+.++||+||||||+++++.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            457789999999999988864

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK08181 transposase; Validated

Probab=92.19  E-value=0.11  Score=49.06  Aligned_cols=87  Identities=13%  Similarity=0.196  Sum_probs=51.3

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      +...++++.||+|+|||.+...++..+...         +..|.+.       +..+|+..+..   .+.++-+...++.
T Consensus       104 ~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~---------g~~v~f~-------~~~~L~~~l~~---a~~~~~~~~~l~~  164 (269)
T PRK08181        104 AKGANLLLFGPPGGGKSHLAAAIGLALIEN---------GWRVLFT-------RTTDLVQKLQV---ARRELQLESAIAK  164 (269)
T ss_pred             hcCceEEEEecCCCcHHHHHHHHHHHHHHc---------CCceeee-------eHHHHHHHHHH---HHhCCcHHHHHHH
Confidence            445679999999999999988877655321         1233322       23445544421   2345555566665


Q ss_pred             HhcCCCCCceEEEEc--CC--CChHhhhhhhhccC
Q psy4734         260 MAVSTTPDRKWIMFD--GP--IDAVWIENMNTVLD  290 (367)
Q Consensus       260 ~~~~~~~~~~wivfD--G~--~d~~wie~lnsvld  290 (367)
                      ..     ....+|+|  |.  .+..|.+.|-.+++
T Consensus       165 l~-----~~dLLIIDDlg~~~~~~~~~~~Lf~lin  194 (269)
T PRK08181        165 LD-----KFDLLILDDLAYVTKDQAETSVLFELIS  194 (269)
T ss_pred             Hh-----cCCEEEEeccccccCCHHHHHHHHHHHH
Confidence            52     33688888  22  35556556655554

>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=92.14  E-value=0.072  Score=50.06  Aligned_cols=33  Identities=24%  Similarity=0.414  Sum_probs=24.5

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +..+...+..+++.|++||||||+++.|...+.
T Consensus       120 l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~  152 (270)
T PF00437_consen  120 LRSAVRGRGNILISGPTGSGKTTLLNALLEEIP  152 (270)
T ss_dssp             HHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCH
T ss_pred             HhhccccceEEEEECCCccccchHHHHHhhhcc
Confidence            344444566688889999999999988766553

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 ....

>PRK06547 hypothetical protein; Provisional

Probab=92.12  E-value=0.087  Score=46.43  Aligned_cols=22  Identities=36%  Similarity=0.377  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus        18 i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         18 VLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4556999999999999988764

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=92.12  E-value=0.22  Score=52.22  Aligned_cols=25  Identities=28%  Similarity=0.311  Sum_probs=22.0

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .+.++|.+||||||+.+.|++.+..
T Consensus       394 ~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        394 TVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             EEEEECCCCChHHHHHHHHHHHhhh
Confidence            4677899999999999999998864

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=92.11  E-value=0.1  Score=45.95  Aligned_cols=24  Identities=33%  Similarity=0.391  Sum_probs=20.9

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|+.||||||..+.|++.+..
T Consensus         3 I~ieG~~GsGKtT~~~~L~~~l~~   26 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAERLEA   26 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            457799999999999999998853

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=92.10  E-value=0.093  Score=48.11  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=19.9

Q ss_pred             eeccccCCCchhhHHHHHHHHHH
Q psy4734         186 MVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       186 ~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .+.|++||||||+.+.|+..+..
T Consensus         3 gI~G~sGSGKTTla~~L~~~l~~   25 (220)
T cd02025           3 GIAGSVAVGKSTTARVLQALLSR   25 (220)
T ss_pred             EeeCCCCCCHHHHHHHHHHHHhh
Confidence            46799999999999999988753

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=92.10  E-value=0.078  Score=44.75  Aligned_cols=34  Identities=26%  Similarity=0.265  Sum_probs=25.9

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+++....-+.+.|+.|+||||+.+.++++++.
T Consensus        15 l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        15 FAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             HHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            3444444445778899999999999999998853

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.

>TIGR00235 udk uridine kinase

Probab=92.08  E-value=0.09  Score=47.46  Aligned_cols=23  Identities=30%  Similarity=0.335  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++||||||+.+.|+..+.
T Consensus         9 i~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         9 IGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            45679999999999999887654

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies

Probab=92.07  E-value=0.22  Score=44.68  Aligned_cols=47  Identities=30%  Similarity=0.338  Sum_probs=30.8

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccc
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQL  237 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l  237 (367)
                      .+++.|.+|+|||++++.+..++.....       ...+.++.++|+......+
T Consensus        40 h~li~G~tgsGKS~~l~~ll~~l~~~~~-------p~~~~l~iiD~k~~~l~~~   86 (205)
T PF01580_consen   40 HLLIAGATGSGKSTLLRTLLLSLALTYS-------PDDVQLYIIDPKGSDLAPL   86 (205)
T ss_dssp             SEEEE--TTSSHHHHHHHHHHHHHTT---------TTTEEEEEE-TTSSCCGGG
T ss_pred             eEEEEcCCCCCccHHHHHHHHHHHHHhc-------CCccEEEEEcCCccccchh
Confidence            5788899999999999987776644321       2357788899996554444

The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.

>PRK13764 ATPase; Provisional

Probab=91.87  E-value=0.49  Score=49.75  Aligned_cols=30  Identities=30%  Similarity=0.418  Sum_probs=24.7

Q ss_pred             HHhhhhhheeccccCCCchhhHHHHHHHHH
Q psy4734         178 IFEVRHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       178 ~~~~~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +...+.++++.|++||||||+++.|...+.
T Consensus       253 l~~~~~~ILIsG~TGSGKTTll~AL~~~i~  282 (602)
T PRK13764        253 LEERAEGILIAGAPGAGKSTFAQALAEFYA  282 (602)
T ss_pred             HHhcCCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            345567788899999999999998887764

>PRK00625 shikimate kinase; Provisional

Probab=91.86  E-value=0.1  Score=46.10  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=20.3

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ++++|.+||||||+.+.|++.++
T Consensus         3 I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          3 IFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            67889999999999999988763

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

Probab=91.85  E-value=0.082  Score=50.81  Aligned_cols=27  Identities=33%  Similarity=0.465  Sum_probs=22.9

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..+.++++||+|||||-+.++||+.|+
T Consensus        96 ~KSNILLiGPTGsGKTlLAqTLAk~Ln  122 (408)
T COG1219          96 SKSNILLIGPTGSGKTLLAQTLAKILN  122 (408)
T ss_pred             eeccEEEECCCCCcHHHHHHHHHHHhC
Confidence            345688999999999999999998773

>PF05729 NACHT: NACHT domain

Probab=91.83  E-value=0.12  Score=43.86  Aligned_cols=25  Identities=36%  Similarity=0.497  Sum_probs=20.5

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.+.|++|+|||++.+.++..+...
T Consensus         3 l~I~G~~G~GKStll~~~~~~~~~~   27 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQLAEE   27 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHHHhc
Confidence            5678999999999998887766543

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

Probab=91.80  E-value=0.16  Score=49.61  Aligned_cols=137  Identities=18%  Similarity=0.239  Sum_probs=72.4

Q ss_pred             HHhcCCcccchhhHHHH--HhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccc
Q psy4734         162 LSETKDPLRVQPHLKKI--FEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG  239 (367)
Q Consensus       162 ls~~~~~~~lq~~l~k~--~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G  239 (367)
                      +.++.+-.-.+|.+++-  ++-..||++.||||+|||.+.+..|...+              .....+.-. -=++.+.|
T Consensus       163 irE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~--------------AtFIrvvgS-ElVqKYiG  227 (406)
T COG1222         163 IREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTD--------------ATFIRVVGS-ELVQKYIG  227 (406)
T ss_pred             HHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccC--------------ceEEEeccH-HHHHHHhc
Confidence            34444444456665554  35678999999999999999887664321              111111110 01122233


Q ss_pred             eecccccccccchHHHHHHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCC-----ceee-cccceeecCCCCeEE
Q psy4734         240 EFDSASHEWRDGILAKTFREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNK-----KLCL-INGEIIKMSNTMNLI  312 (367)
Q Consensus       240 ~~d~~~~~W~dGil~~~~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~-----~l~L-~~ge~i~l~~~~~~i  312 (367)
                                +|  ++++|+...- ..+.+..|++| .+|+-=.-..++--...+     +|-| +.=|=.--..++++|
T Consensus       228 ----------EG--aRlVRelF~lArekaPsIIFiD-EIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI  294 (406)
T COG1222         228 ----------EG--ARLVRELFELAREKAPSIIFID-EIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVI  294 (406)
T ss_pred             ----------cc--hHHHHHHHHHHhhcCCeEEEEe-chhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEE
Confidence                      22  5677776543 34667888888 444432222211000000     0000 001112235578889


Q ss_pred             EecCCCCccCcchh
Q psy4734         313 FECENLEFASPATV  326 (367)
Q Consensus       313 fE~~~l~~asPatv  326 (367)
                      +-|.-..-.-||.+
T Consensus       295 ~ATNR~D~LDPALL  308 (406)
T COG1222         295 MATNRPDILDPALL  308 (406)
T ss_pred             EecCCccccChhhc
Confidence            88888888888876

>TIGR03263 guanyl_kin guanylate kinase

Probab=91.78  E-value=0.082  Score=46.27  Aligned_cols=22  Identities=27%  Similarity=0.329  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||+.+.|+...
T Consensus         4 i~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         4 IVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHccC
Confidence            5678999999999998887643

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK14528 adenylate kinase; Provisional

Probab=91.77  E-value=0.09  Score=46.77  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||..+.|++.+
T Consensus         4 i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          4 IIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999988765

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=91.76  E-value=0.48  Score=41.12  Aligned_cols=72  Identities=15%  Similarity=0.229  Sum_probs=43.4

Q ss_pred             ccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC-CCC
Q psy4734         188 VGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS-TTP  266 (367)
Q Consensus       188 ~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~-~~~  266 (367)
                      .+.+|+||||+.-.|+.++...         +.+|.+...+|..-+...+++          .-.....+++.... ...
T Consensus         6 s~kgG~GKTt~a~~LA~~la~~---------g~~vllvD~D~q~~~~~~~~~----------~~~~~~~l~~~~~~~~~~   66 (169)
T cd02037           6 SGKGGVGKSTVAVNLALALAKL---------GYKVGLLDADIYGPSIPKMWR----------GPMKMGAIKQFLTDVDWG   66 (169)
T ss_pred             cCCCcCChhHHHHHHHHHHHHc---------CCcEEEEeCCCCCCCchHHHh----------CcchHHHHHHHHHHhhcC
Confidence            3678999999999999888754         346777777776544332211          11122333333221 124


Q ss_pred             CceEEEEcCCCC
Q psy4734         267 DRKWIMFDGPID  278 (367)
Q Consensus       267 ~~~wivfDG~~d  278 (367)
                      .-.+||+|.|..
T Consensus        67 ~yD~VIiD~pp~   78 (169)
T cd02037          67 ELDYLVIDMPPG   78 (169)
T ss_pred             CCCEEEEeCCCC
Confidence            568999998864

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>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=91.74  E-value=0.093  Score=44.74  Aligned_cols=20  Identities=30%  Similarity=0.391  Sum_probs=17.8

Q ss_pred             eccccCCCchhhHHHHHHHH
Q psy4734         187 VVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       187 ~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.|||||||||+.+.|++.+
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            47999999999999988865

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 ....

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=91.74  E-value=0.11  Score=44.47  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ++++|++||||||+.+.|+..+.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            56789999999999999988774

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=91.68  E-value=0.12  Score=44.89  Aligned_cols=26  Identities=38%  Similarity=0.597  Sum_probs=18.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ..+++.|++|+|||++++.+...+..
T Consensus        25 ~~~ll~G~~G~GKT~ll~~~~~~~~~   50 (185)
T PF13191_consen   25 RNLLLTGESGSGKTSLLRALLDRLAE   50 (185)
T ss_dssp             --EEE-B-TTSSHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            55788899999999999877766644

>PRK06696 uridine kinase; Validated

Probab=91.61  E-value=0.12  Score=47.19  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=20.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      |.+.|++||||||+.+.|++.+..
T Consensus        25 I~I~G~sgsGKSTlA~~L~~~l~~   48 (223)
T PRK06696         25 VAIDGITASGKTTFADELAEEIKK   48 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            556699999999999999998864

>PF13245 AAA_19: Part of AAA domain

Probab=91.54  E-value=0.19  Score=38.03  Aligned_cols=24  Identities=38%  Similarity=0.372  Sum_probs=15.8

Q ss_pred             hhhee-ccccCCCchh-hHHHHHHHH
Q psy4734         183 HGLMV-VGESFGGKTT-AYQTLADSL  206 (367)
Q Consensus       183 ~~v~~-~g~~gsGKTt-~~~~L~~al  206 (367)
                      .++++ .||||+|||+ +.+.++..+
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            44454 7999999995 544444443

>PRK00300 gmk guanylate kinase; Provisional

Probab=91.52  E-value=0.1  Score=46.73  Aligned_cols=22  Identities=27%  Similarity=0.360  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||+.+.|+..+
T Consensus         8 i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          8 IVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            5678999999999999988764

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=91.52  E-value=0.5  Score=51.58  Aligned_cols=88  Identities=19%  Similarity=0.150  Sum_probs=47.4

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc-c--------ccccceecccccccccchHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT-M--------GQLYGEFDSASHEWRDGILAK  255 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t-~--------~~l~G~~d~~~~~W~dGil~~  255 (367)
                      +++.|+||+|||++.+.+.+.+.......    ....+.+..||+-.+. .        .+|+|.. |.++--...++..
T Consensus       784 LYIyG~PGTGKTATVK~VLrELqeeaeqk----~lp~f~vVYINCm~Lstp~sIYqvI~qqL~g~~-P~~GlsS~evLer  858 (1164)
T PTZ00112        784 LYISGMPGTGKTATVYSVIQLLQHKTKQK----LLPSFNVFEINGMNVVHPNAAYQVLYKQLFNKK-PPNALNSFKILDR  858 (1164)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHHhhc----cCCCceEEEEeCCccCCHHHHHHHHHHHHcCCC-CCccccHHHHHHH
Confidence            35789999999999998877665433221    1123556667775432 2        2333432 2222112334555


Q ss_pred             HHHHHhcCCCCCceEEEEcCCCCh
Q psy4734         256 TFREMAVSTTPDRKWIMFDGPIDA  279 (367)
Q Consensus       256 ~~r~~~~~~~~~~~wivfDG~~d~  279 (367)
                      +++.... .......||+| ++|.
T Consensus       859 LF~~L~k-~~r~v~IIILD-EID~  880 (1164)
T PTZ00112        859 LFNQNKK-DNRNVSILIID-EIDY  880 (1164)
T ss_pred             HHhhhhc-ccccceEEEee-hHhh
Confidence            5554321 12234588999 5553

>PRK13808 adenylate kinase; Provisional

Probab=91.52  E-value=0.4  Score=46.75  Aligned_cols=22  Identities=32%  Similarity=0.431  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||..+.|+..+
T Consensus         3 Iiv~GpPGSGK~T~a~~LA~~y   24 (333)
T PRK13808          3 LILLGPPGAGKGTQAQRLVQQY   24 (333)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999887765

>PRK14527 adenylate kinase; Provisional

Probab=91.47  E-value=0.098  Score=46.55  Aligned_cols=22  Identities=32%  Similarity=0.453  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||..+.|++.+
T Consensus         9 i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          9 VIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6677999999999999887655

>PRK14738 gmk guanylate kinase; Provisional

Probab=91.47  E-value=0.098  Score=47.34  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=18.5

Q ss_pred             hhheeccccCCCchhhHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      .-+.++||+|+||||+++.|.+.
T Consensus        14 ~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         14 LLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             eEEEEECcCCCCHHHHHHHHHhc
Confidence            34667899999999999887643

>PTZ00301 uridine kinase; Provisional

Probab=91.46  E-value=0.13  Score=46.89  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      |.+.|+|||||||+.+.|.+.+..
T Consensus         6 IgIaG~SgSGKTTla~~l~~~l~~   29 (210)
T PTZ00301          6 IGISGASGSGKSSLSTNIVSELMA   29 (210)
T ss_pred             EEEECCCcCCHHHHHHHHHHHHHh
Confidence            446799999999999888877653

>PRK04040 adenylate kinase; Provisional

Probab=91.46  E-value=0.11  Score=46.33  Aligned_cols=23  Identities=30%  Similarity=0.343  Sum_probs=19.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|.|||||||+.+.|++.+.
T Consensus         5 i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          5 VVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHhc
Confidence            56789999999999999887763

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=91.44  E-value=0.21  Score=48.76  Aligned_cols=48  Identities=25%  Similarity=0.334  Sum_probs=35.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccce
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGE  240 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~  240 (367)
                      -+-+.|++|+||||+...|...+...         +.+|.+..++|.+. +-+.+.|+
T Consensus        58 ~igi~G~~GaGKSTl~~~l~~~l~~~---------g~~v~vi~~Dp~s~~~~gallgd  106 (332)
T PRK09435         58 RIGITGVPGVGKSTFIEALGMHLIEQ---------GHKVAVLAVDPSSTRTGGSILGD  106 (332)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC---------CCeEEEEEeCCCccccchhhhch
Confidence            36678999999999999988887533         23577777888774 44555553

>PRK00279 adk adenylate kinase; Reviewed

Probab=91.38  E-value=0.1  Score=47.38  Aligned_cols=23  Identities=26%  Similarity=0.391  Sum_probs=19.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +++.|+|||||||..+.|++.++
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            57789999999999999887663

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=91.36  E-value=0.14  Score=48.25  Aligned_cols=33  Identities=33%  Similarity=0.567  Sum_probs=24.5

Q ss_pred             HHHHHhhhhh-heeccccCCCchhhHHHHHHHHH
Q psy4734         175 LKKIFEVRHG-LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       175 l~k~~~~~~~-v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++....+| +++.|++||||||+++.+...+.
T Consensus        72 l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~  105 (264)
T cd01129          72 FRKLLEKPHGIILVTGPTGSGKTTTLYSALSELN  105 (264)
T ss_pred             HHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhC
Confidence            4555555666 56779999999999987765553

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=91.34  E-value=0.14  Score=52.06  Aligned_cols=32  Identities=31%  Similarity=0.483  Sum_probs=23.0

Q ss_pred             HHHHHhhhhhheec-cccCCCchhhHHHHHHHH
Q psy4734         175 LKKIFEVRHGLMVV-GESFGGKTTAYQTLADSL  206 (367)
Q Consensus       175 l~k~~~~~~~v~~~-g~~gsGKTt~~~~L~~al  206 (367)
                      +...+...+|++++ ||+||||||++..+-..+
T Consensus       250 ~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~l  282 (500)
T COG2804         250 LLRLLNRPQGLILVTGPTGSGKTTTLYAALSEL  282 (500)
T ss_pred             HHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHh
Confidence            44566778887765 999999998766543333

>PRK13975 thymidylate kinase; Provisional

Probab=91.31  E-value=0.12  Score=45.81  Aligned_cols=23  Identities=35%  Similarity=0.414  Sum_probs=20.3

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||..+.|++.+.
T Consensus         5 I~ieG~~GsGKtT~~~~L~~~l~   27 (196)
T PRK13975          5 IVFEGIDGSGKTTQAKLLAEKLN   27 (196)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            56779999999999999998874

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=91.27  E-value=0.11  Score=46.88  Aligned_cols=26  Identities=31%  Similarity=0.271  Sum_probs=20.5

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-..|.+.||+||||||++++++.-.
T Consensus        30 ~ge~vv~lGpSGcGKTTLLnl~AGf~   55 (259)
T COG4525          30 SGELVVVLGPSGCGKTTLLNLIAGFV   55 (259)
T ss_pred             CCCEEEEEcCCCccHHHHHHHHhcCc
Confidence            33447778999999999999877554

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=91.26  E-value=0.12  Score=51.54  Aligned_cols=26  Identities=23%  Similarity=0.299  Sum_probs=22.2

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|+++.||||+|||++.+.++..+
T Consensus       164 ~p~gvLL~GppGtGKT~lAkaia~~~  189 (389)
T PRK03992        164 PPKGVLLYGPPGTGKTLLAKAVAHET  189 (389)
T ss_pred             CCCceEEECCCCCChHHHHHHHHHHh
Confidence            45679999999999999999887654

>KOG1970|consensus

Probab=91.24  E-value=0.11  Score=53.29  Aligned_cols=23  Identities=35%  Similarity=0.482  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +++.||+||||||++++|++-++
T Consensus       113 LLltGPsGcGKSTtvkvLskelg  135 (634)
T KOG1970|consen  113 LLLTGPSGCGKSTTVKVLSKELG  135 (634)
T ss_pred             EEEeCCCCCCchhHHHHHHHhhC
Confidence            44569999999999999998764

>TIGR03689 pup_AAA proteasome ATPase

Probab=91.21  E-value=0.11  Score=53.41  Aligned_cols=27  Identities=30%  Similarity=0.401  Sum_probs=23.5

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ...|++|.||||+|||++.+.++..+.
T Consensus       215 ~p~GILLyGPPGTGKT~LAKAlA~eL~  241 (512)
T TIGR03689       215 PPKGVLLYGPPGCGKTLIAKAVANSLA  241 (512)
T ss_pred             CCcceEEECCCCCcHHHHHHHHHHhhc
Confidence            457899999999999999999887764

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.

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=91.19  E-value=0.29  Score=51.16  Aligned_cols=22  Identities=41%  Similarity=0.579  Sum_probs=19.0

Q ss_pred             hhheeccccCCCchhhHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      ..+++.|++|||||++.++++.
T Consensus       420 ~~llI~G~SG~GKTsLlRaiaG  441 (604)
T COG4178         420 ERLLITGESGAGKTSLLRALAG  441 (604)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3488899999999999998774

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=91.15  E-value=0.1  Score=51.38  Aligned_cols=26  Identities=23%  Similarity=0.299  Sum_probs=21.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|+++.||||+|||++.+.++..+
T Consensus       155 ~p~gvLL~GppGtGKT~lakaia~~l  180 (364)
T TIGR01242       155 PPKGVLLYGPPGTGKTLLAKAVAHET  180 (364)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhC
Confidence            35679999999999999999887654

Many proteins may score above the trusted cutoff because an internal

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=91.09  E-value=0.44  Score=50.08  Aligned_cols=26  Identities=27%  Similarity=0.292  Sum_probs=21.4

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ..++|.|++|+|||.+++.++..+..
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~  340 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARR  340 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHH
Confidence            34888999999999999988876643

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=91.04  E-value=0.15  Score=44.55  Aligned_cols=30  Identities=23%  Similarity=0.337  Sum_probs=24.0

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.+.+.. +.++|+|++|+||||+++.|...
T Consensus        29 l~~~l~~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   29 LKELLKG-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             HHHHHTT-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             HHHHhcC-CEEEEECCCCCCHHHHHHHHHhh
Confidence            4555556 77889999999999999987654

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=91.04  E-value=0.15  Score=45.17  Aligned_cols=24  Identities=33%  Similarity=0.353  Sum_probs=20.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||+.+.|++.+..
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~   25 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRV   25 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            457799999999999999988763

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>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=91.03  E-value=0.29  Score=47.86  Aligned_cols=25  Identities=28%  Similarity=0.485  Sum_probs=21.4

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.|.||.|+||||+.+.|.+.+...
T Consensus        91 l~L~GPvg~GKSsl~~~Lk~~le~y  115 (358)
T PF08298_consen   91 LLLLGPVGGGKSSLAELLKRGLEEY  115 (358)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhheE
Confidence            5678999999999999999887554

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

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=91.00  E-value=0.11  Score=45.65  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=21.8

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.++|+.|+||||+=+.||++|+
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk~L~   27 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAKALN   27 (172)
T ss_pred             cEEEEcCCCCCHhHHHHHHHHHcC
Confidence            478999999999999999999884

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=90.91  E-value=0.049  Score=45.88  Aligned_cols=35  Identities=20%  Similarity=0.368  Sum_probs=27.3

Q ss_pred             cchhhHHHHHhhhhhheeccccCCCchhhHHHHHH
Q psy4734         170 RVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       170 ~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      ++..++.++-.....|++.|++|+||+++.+.+..
T Consensus         9 ~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~   43 (138)
T PF14532_consen    9 RLRRQLERLAKSSSPVLITGEPGTGKSLLARALHR   43 (138)
T ss_dssp             HHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHH
T ss_pred             HHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHh
Confidence            45556777778888999999999999999776543

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=90.90  E-value=0.13  Score=45.13  Aligned_cols=23  Identities=35%  Similarity=0.465  Sum_probs=20.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+.++|++|+||||+.+.|+..+
T Consensus         6 ~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          6 NIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             EEEEECCCCcCHHHHHHHHHHHc
Confidence            47889999999999999988765

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=90.90  E-value=0.18  Score=46.32  Aligned_cols=25  Identities=24%  Similarity=0.214  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.+.|++||||||+.+.|+..+...
T Consensus        36 igi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         36 VGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhhc
Confidence            5567999999999999999887644

>PLN02200 adenylate kinase family protein

Probab=90.86  E-value=0.12  Score=47.83  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||..+.|++.+
T Consensus        46 i~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         46 TFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5677999999999999888765

>KOG1533|consensus

Probab=90.83  E-value=0.26  Score=45.50  Aligned_cols=39  Identities=23%  Similarity=0.377  Sum_probs=28.0

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS  231 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka  231 (367)
                      |..++|||||||||-..-+.+.++.+++         +|.+..++|.-
T Consensus         4 gqvVIGPPgSGKsTYc~g~~~fls~~gr---------~~~vVNLDPaN   42 (290)
T KOG1533|consen    4 GQVVIGPPGSGKSTYCNGMSQFLSAIGR---------PVAVVNLDPAN   42 (290)
T ss_pred             ceEEEcCCCCCccchhhhHHHHHHHhCC---------ceEEEecCCcc
Confidence            4567899999999987777777776643         35555566654

>CHL00195 ycf46 Ycf46; Provisional

Probab=90.74  E-value=0.12  Score=53.11  Aligned_cols=26  Identities=27%  Similarity=0.434  Sum_probs=22.3

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|+++.||||+|||.+.+.++..+
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e~  283 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIANDW  283 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHh
Confidence            45789999999999999999887654

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=90.74  E-value=0.13  Score=44.64  Aligned_cols=25  Identities=40%  Similarity=0.420  Sum_probs=21.4

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++++|.+||||||+.+.|++.++
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg   27 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALG   27 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3477889999999999999998763

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=90.73  E-value=0.15  Score=41.05  Aligned_cols=20  Identities=35%  Similarity=0.507  Sum_probs=16.9

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      ++++|++|+||||+++.|..
T Consensus         2 I~V~G~~g~GKTsLi~~l~~   21 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCG   21 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHhc
Confidence            46789999999999887664

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>PRK10536 hypothetical protein; Provisional

Probab=90.69  E-value=0.35  Score=45.43  Aligned_cols=157  Identities=13%  Similarity=0.078  Sum_probs=82.9

Q ss_pred             HhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccc-----cccccchH
Q psy4734         179 FEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSAS-----HEWRDGIL  253 (367)
Q Consensus       179 ~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~-----~~W~dGil  253 (367)
                      +....-+++.||+|+|||++...++..  .+...        .+...++.-..++.++.+|++ |.+     ..|---+.
T Consensus        71 l~~~~lV~i~G~aGTGKT~La~a~a~~--~l~~~--------~~~kIiI~RP~v~~ge~LGfL-PG~~~eK~~p~~~pi~  139 (262)
T PRK10536         71 IESKQLIFATGEAGCGKTWISAAKAAE--ALIHK--------DVDRIIVTRPVLQADEDLGFL-PGDIAEKFAPYFRPVY  139 (262)
T ss_pred             HhcCCeEEEECCCCCCHHHHHHHHHHH--HHhcC--------CeeEEEEeCCCCCchhhhCcC-CCCHHHHHHHHHHHHH
Confidence            344455677799999999997766542  22111        123222333345677877765 222     12433222


Q ss_pred             HHHH--------HHHhc---------------CCCCCceEEEEc--CCCChHhhhhhhhccCCCCce-eecccceeecCC
Q psy4734         254 AKTF--------REMAV---------------STTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKL-CLINGEIIKMSN  307 (367)
Q Consensus       254 ~~~~--------r~~~~---------------~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l-~L~~ge~i~l~~  307 (367)
                      ..+-        +....               ...-+..+||+|  -.+++.-+..+.+-+.++..+ .+.+-..|-+|+
T Consensus       140 D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR~g~~sk~v~~GD~~QiD~p~  219 (262)
T PRK10536        140 DVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLTRLGENVTVIVNGDITQCDLPR  219 (262)
T ss_pred             HHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHhhcCCCCEEEEeCChhhccCCC
Confidence            2211        11110               011245799999  335665555555555554444 444445555543


Q ss_pred             CCeEEEecCCCCccCcch--hhceeeEEecccCCchHHHHHHHHHH
Q psy4734         308 TMNLIFECENLEFASPAT--VSRVGMIYFELKCISWTTFFLSYQNE  351 (367)
Q Consensus       308 ~~~~ifE~~~l~~asPat--vsRcg~v~~~~~~~~~~~~~~swl~~  351 (367)
                      .     +.+=|.+|.-..  ...+|.|+++.+++-=.+++..+++.
T Consensus       220 ~-----~~sGL~~~~~~~k~~~~~~~i~l~~~d~vRs~l~~~~~~a  260 (262)
T PRK10536        220 G-----VKSGLSDALERFEEDEMVGIVRFGKEDCVRSALCQRTLHA  260 (262)
T ss_pred             C-----CCCCHHHHHHHhCCCCceEEEEEecCceEecHHHHHHHHH
Confidence            2     122233322211  35799999998888777888887754

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=90.66  E-value=0.12  Score=44.58  Aligned_cols=22  Identities=36%  Similarity=0.498  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|++||||||+.+.|++.+
T Consensus         3 I~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            5678999999999999988765

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

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

Probab=90.66  E-value=0.13  Score=51.53  Aligned_cols=26  Identities=23%  Similarity=0.303  Sum_probs=22.1

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|+++.||||+|||++.+.++..+
T Consensus       178 ~pkgvLL~GppGTGKT~LAkalA~~l  203 (398)
T PTZ00454        178 PPRGVLLYGPPGTGKTMLAKAVAHHT  203 (398)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999887643

>KOG0727|consensus

Probab=90.61  E-value=0.19  Score=46.97  Aligned_cols=42  Identities=21%  Similarity=0.270  Sum_probs=30.0

Q ss_pred             hcCCcccchhhHHHHH--hhhhhheeccccCCCchhhHHHHHHH
Q psy4734         164 ETKDPLRVQPHLKKIF--EVRHGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       164 ~~~~~~~lq~~l~k~~--~~~~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ++.+-.-.+..+++.+  +-..||++.||||+|||.+.+..+..
T Consensus       169 eavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~  212 (408)
T KOG0727|consen  169 EAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANH  212 (408)
T ss_pred             HHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhc
Confidence            3333333455577763  56789999999999999998876643

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=90.61  E-value=0.13  Score=49.66  Aligned_cols=34  Identities=26%  Similarity=0.453  Sum_probs=26.7

Q ss_pred             hhHHHHHhhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         173 PHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       173 ~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.-++..+..++++|++||||||+++.|...+
T Consensus       135 ~~l~~~v~~~~~ili~G~tGsGKTTll~al~~~~  168 (308)
T TIGR02788       135 EFLRLAIASRKNIIISGGTGSGKTTFLKSLVDEI  168 (308)
T ss_pred             HHHHHHhhCCCEEEEECCCCCCHHHHHHHHHccC
Confidence            3455566677789999999999999998876544

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.

>PRK00698 tmk thymidylate kinase; Validated

Probab=90.59  E-value=0.18  Score=44.91  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=20.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|+.||||||..+.|++.+..
T Consensus         6 I~ieG~~gsGKsT~~~~L~~~l~~   29 (205)
T PRK00698          6 ITIEGIDGAGKSTQIELLKELLEQ   29 (205)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            556799999999999999988753

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=90.56  E-value=0.11  Score=43.11  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=18.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||++++|+...
T Consensus        14 ~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   14 VAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEccCCCccccceeeecccc
Confidence            5678999999999998876543

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=90.56  E-value=0.13  Score=47.62  Aligned_cols=22  Identities=45%  Similarity=0.433  Sum_probs=18.5

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      .+-++|++||||||+.++|+.-
T Consensus        35 ~lgivGeSGsGKSTL~r~l~Gl   56 (252)
T COG1124          35 TLGIVGESGSGKSTLARLLAGL   56 (252)
T ss_pred             EEEEEcCCCCCHHHHHHHHhcc
Confidence            3668999999999999987743

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=90.54  E-value=0.21  Score=44.91  Aligned_cols=22  Identities=27%  Similarity=0.394  Sum_probs=15.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .++.||||+|||+++..+...+
T Consensus        20 ~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   20 TLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHHh
Confidence            5566999999997766655544

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=90.54  E-value=0.14  Score=49.41  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++||+|||||++...|++.++
T Consensus         7 i~i~GptgsGKt~la~~la~~~~   29 (307)
T PRK00091          7 IVIVGPTASGKTALAIELAKRLN   29 (307)
T ss_pred             EEEECCCCcCHHHHHHHHHHhCC
Confidence            56779999999999999887763

>PRK11545 gntK gluconate kinase 1; Provisional

Probab=90.53  E-value=0.15  Score=44.34  Aligned_cols=20  Identities=30%  Similarity=0.370  Sum_probs=17.7

Q ss_pred             ccccCCCchhhHHHHHHHHH
Q psy4734         188 VGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       188 ~g~~gsGKTt~~~~L~~al~  207 (367)
                      +|++||||||+.+.|+..++
T Consensus         1 ~G~sGsGKSTla~~la~~l~   20 (163)
T PRK11545          1 MGVSGSGKSAVASEVAHQLH   20 (163)
T ss_pred             CCCCCCcHHHHHHHHHHHhC
Confidence            49999999999999988773

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=90.52  E-value=0.62  Score=48.21  Aligned_cols=107  Identities=20%  Similarity=0.203  Sum_probs=54.3

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc-cccc--cceec--ccccccccchHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT-MGQL--YGEFD--SASHEWRDGILAKT  256 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t-~~~l--~G~~d--~~~~~W~dGil~~~  256 (367)
                      ...+.|+||+|+||||+...|+..+.....       ..+|.+...++..+. ..++  ||...  +.......+-+..+
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~-------gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~a  422 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHA-------PRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDL  422 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcC-------CCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHH
Confidence            345778899999999999888876543210       123544444443321 1112  11110  01111233445566


Q ss_pred             HHHHhcCCCCCceEEEEcCC----CChHhhhhhh---hccCCCCceeeccc
Q psy4734         257 FREMAVSTTPDRKWIMFDGP----IDAVWIENMN---TVLDDNKKLCLING  300 (367)
Q Consensus       257 ~r~~~~~~~~~~~wivfDG~----~d~~wie~ln---svlddn~~l~L~~g  300 (367)
                      +++.     ...++|++|.+    .|...++.|.   ........|.++.+
T Consensus       423 L~~l-----~~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAt  468 (559)
T PRK12727        423 LERL-----RDYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPAN  468 (559)
T ss_pred             HHHh-----ccCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECC
Confidence            6654     24689999944    3555454443   22234445555443

>KOG0736|consensus

Probab=90.49  E-value=1.1  Score=47.94  Aligned_cols=27  Identities=26%  Similarity=0.345  Sum_probs=22.8

Q ss_pred             HHHhhhhhheeccccCCCchhhHHHHH
Q psy4734         177 KIFEVRHGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       177 k~~~~~~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      +=+.-|.|+++.||||+|||-+.|..|
T Consensus       700 sglrkRSGILLYGPPGTGKTLlAKAVA  726 (953)
T KOG0736|consen  700 SGLRKRSGILLYGPPGTGKTLLAKAVA  726 (953)
T ss_pred             ccccccceeEEECCCCCchHHHHHHHH
Confidence            334559999999999999999988866

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=90.42  E-value=0.63  Score=46.83  Aligned_cols=23  Identities=35%  Similarity=0.403  Sum_probs=19.6

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -++++||+|+||||+...|+...
T Consensus       225 vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        225 VVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36788999999999998888755

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=90.42  E-value=0.16  Score=44.91  Aligned_cols=22  Identities=23%  Similarity=0.279  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||+.+.++..+
T Consensus         6 i~l~G~sGsGKSTl~~~la~~l   27 (176)
T PRK09825          6 YILMGVSGSGKSLIGSKIAALF   27 (176)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            5678999999999999988755

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

Probab=90.39  E-value=0.32  Score=52.57  Aligned_cols=26  Identities=31%  Similarity=0.363  Sum_probs=22.4

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ...++++||||+|||++.+.|+..+.
T Consensus       203 ~~n~lL~G~pG~GKT~l~~~la~~~~  228 (731)
T TIGR02639       203 KNNPLLVGEPGVGKTAIAEGLALRIA  228 (731)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHH
Confidence            45688999999999999999987664

>PRK14737 gmk guanylate kinase; Provisional

Probab=90.36  E-value=0.15  Score=45.48  Aligned_cols=22  Identities=27%  Similarity=0.410  Sum_probs=18.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||+.+.|.+..
T Consensus         7 ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          7 FIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            5678999999999999886543

>PRK00889 adenylylsulfate kinase; Provisional

Probab=90.34  E-value=0.18  Score=44.08  Aligned_cols=23  Identities=39%  Similarity=0.423  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++|+||||+.+.|+..+.
T Consensus         7 i~~~G~~GsGKST~a~~la~~l~   29 (175)
T PRK00889          7 VWFTGLSGAGKTTIARALAEKLR   29 (175)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            56779999999999999998775

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=90.34  E-value=0.27  Score=50.81  Aligned_cols=120  Identities=13%  Similarity=0.209  Sum_probs=69.0

Q ss_pred             hHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceeccc---cc
Q psy4734         174 HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDSA---SH  246 (367)
Q Consensus       174 ~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~~---~~  246 (367)
                      .+.++-.....|++.|++|+||+++.+.+...-.    ..       .-.+..+|+.+++    -.+|||.-...   ..
T Consensus       202 ~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~----r~-------~~p~v~v~c~~~~~~~~e~~lfG~~~g~~~ga~  270 (509)
T PRK05022        202 EIEVVAASDLNVLILGETGVGKELVARAIHAASP----RA-------DKPLVYLNCAALPESLAESELFGHVKGAFTGAI  270 (509)
T ss_pred             HHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC----cC-------CCCeEEEEcccCChHHHHHHhcCccccccCCCc
Confidence            3455556777899999999999999877654321    11       1234567877775    34678853210   00


Q ss_pred             ccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecC
Q psy4734         247 EWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECE  316 (367)
Q Consensus       247 ~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~  316 (367)
                      .-..|.+    ..      ...-.+++|  +.+++.--..|-.++++...-.+.+..  ..+.++|+|+-++
T Consensus       271 ~~~~g~~----~~------a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~--~~~~~~RiI~~t~  330 (509)
T PRK05022        271 SNRSGKF----EL------ADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDR--SLRVDVRVIAATN  330 (509)
T ss_pred             ccCCcch----hh------cCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCc--ceecceEEEEecC
Confidence            1122322    11      122458888  445555555666677766554554333  3445788888764

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=90.33  E-value=0.14  Score=48.82  Aligned_cols=22  Identities=27%  Similarity=0.303  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||+.+.|++.+
T Consensus         5 iil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          5 ILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHC
Confidence            5677999999999999988765

>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=90.31  E-value=0.083  Score=44.30  Aligned_cols=99  Identities=21%  Similarity=0.384  Sum_probs=49.4

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccce--eccccc--ccccchHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE--FDSASH--EWRDGILAKTFREM  260 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~--~d~~~~--~W~dGil~~~~r~~  260 (367)
                      +++.|+||.|||++.+.|+++++.-         ..+|.   ..|. +.-.++.|.  +|..++  +|..|.+-      
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~---------f~RIq---~tpd-llPsDi~G~~v~~~~~~~f~~~~GPif------   62 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLS---------FKRIQ---FTPD-LLPSDILGFPVYDQETGEFEFRPGPIF------   62 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT-----------EEEEE-----TT---HHHHHEEEEEETTTTEEEEEE-TT-------
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCc---------eeEEE---ecCC-CCcccceeeeeeccCCCeeEeecChhh------
Confidence            5788999999999999999886421         11222   3344 445667775  455443  35556432      


Q ss_pred             hcCCCCCceEEEEcCCCChH-------hhhhhhhccCCCCceeecccceeecCCCCeEEEecCC
Q psy4734         261 AVSTTPDRKWIMFDGPIDAV-------WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN  317 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~-------wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~  317 (367)
                             ..++++| .++..       ..|.|.     .+.+++ .|+..++|+.+ +++-|.|
T Consensus        63 -------~~ill~D-EiNrappktQsAlLeam~-----Er~Vt~-~g~~~~lp~pf-~ViATqN  111 (131)
T PF07726_consen   63 -------TNILLAD-EINRAPPKTQSALLEAME-----ERQVTI-DGQTYPLPDPF-FVIATQN  111 (131)
T ss_dssp             -------SSEEEEE-TGGGS-HHHHHHHHHHHH-----HSEEEE-TTEEEE--SS--EEEEEE-
T ss_pred             -------hceeeec-ccccCCHHHHHHHHHHHH-----cCeEEe-CCEEEECCCcE-EEEEecC
Confidence                   2467777 44332       334333     334444 37788888877 4444433

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.

>PRK04182 cytidylate kinase; Provisional

Probab=90.26  E-value=0.13  Score=44.62  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.++
T Consensus         3 I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          3 ITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            56789999999999999987653

>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []

Probab=90.24  E-value=0.37  Score=46.23  Aligned_cols=19  Identities=26%  Similarity=0.396  Sum_probs=15.7

Q ss_pred             eeccccCCCchhhHHHHHH
Q psy4734         186 MVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       186 ~~~g~~gsGKTt~~~~L~~  204 (367)
                      .+.||+|||||.+++-|..
T Consensus        91 ~VYGPTG~GKSqLlRNLis  109 (369)
T PF02456_consen   91 VVYGPTGSGKSQLLRNLIS  109 (369)
T ss_pred             EEECCCCCCHHHHHHHhhh
Confidence            3569999999999987654

During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription

>PRK14529 adenylate kinase; Provisional

Probab=90.23  E-value=0.16  Score=46.76  Aligned_cols=23  Identities=17%  Similarity=0.270  Sum_probs=20.3

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +++.|+|||||||..+.|++.++
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~   25 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYD   25 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            57789999999999999988764

>PRK07667 uridine kinase; Provisional

Probab=90.19  E-value=0.18  Score=45.16  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=20.8

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      |.+.|++||||||+.+.|++.++.
T Consensus        20 IgI~G~~gsGKStla~~L~~~l~~   43 (193)
T PRK07667         20 LGIDGLSRSGKTTFVANLKENMKQ   43 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            456799999999999999988864

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=90.17  E-value=0.21  Score=42.44  Aligned_cols=24  Identities=38%  Similarity=0.487  Sum_probs=20.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ++++|+.+|||||+++.|...+..
T Consensus         3 v~VvG~~~sGKTTl~~~Li~~l~~   26 (140)
T PF03205_consen    3 VQVVGPKNSGKTTLIRKLINELKR   26 (140)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhH
Confidence            578999999999999998877653

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=90.13  E-value=0.16  Score=44.73  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.||+||||||+.++++.-.
T Consensus        32 iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          32 IAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             EEEeCCCCccHHHHHHHHHhcc
Confidence            6678999999999999887543

>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=90.09  E-value=0.22  Score=43.75  Aligned_cols=27  Identities=30%  Similarity=0.526  Sum_probs=20.4

Q ss_pred             CceEEEEc--CCC---ChHhhhhhhhccCCCC
Q psy4734         267 DRKWIMFD--GPI---DAVWIENMNTVLDDNK  293 (367)
Q Consensus       267 ~~~wivfD--G~~---d~~wie~lnsvlddn~  293 (367)
                      ..+++|+|  |++   .+.|.+.+..+||.++
T Consensus        95 ~~~liviDEIG~mEl~~~~F~~~v~~~l~s~~  126 (168)
T PF03266_consen   95 SSDLIVIDEIGKMELKSPGFREAVEKLLDSNK  126 (168)
T ss_dssp             CCHEEEE---STTCCC-CHHHHHHHHHHCTTS
T ss_pred             CCCEEEEeccchhhhcCHHHHHHHHHHHcCCC
Confidence            45799999  887   5679999999999544

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.

>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=90.09  E-value=0.16  Score=40.99  Aligned_cols=19  Identities=26%  Similarity=0.459  Sum_probs=17.0

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      |.++|++|+||||+++.|.
T Consensus         2 V~iiG~~~~GKSTlin~l~   20 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALT   20 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            5788999999999998876

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 ....

>PRK14526 adenylate kinase; Provisional

Probab=90.07  E-value=0.18  Score=45.95  Aligned_cols=22  Identities=32%  Similarity=0.453  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||..+.|++.+
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~   24 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNEL   24 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5688999999999999988765

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=90.04  E-value=0.43  Score=45.61  Aligned_cols=49  Identities=24%  Similarity=0.424  Sum_probs=38.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccce
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGE  240 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~  240 (367)
                      |-+-+.|+||+||||++..|...+..         .+.+|-+..|+|.+. |-+.+.|.
T Consensus        52 ~viGITG~PGaGKSTli~~L~~~l~~---------~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          52 HVIGITGVPGAGKSTLIEALGRELRE---------RGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             cEEEecCCCCCchHHHHHHHHHHHHH---------CCcEEEEEEECCCCCCCCcccccc
Confidence            34667899999999999988776632         245788888999985 88888885

>PRK10436 hypothetical protein; Provisional

Probab=90.01  E-value=0.2  Score=51.10  Aligned_cols=32  Identities=25%  Similarity=0.458  Sum_probs=23.0

Q ss_pred             HHHHHhhhhhhe-eccccCCCchhhHHHHHHHH
Q psy4734         175 LKKIFEVRHGLM-VVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       175 l~k~~~~~~~v~-~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++....+|++ +.||+||||||++..+...+
T Consensus       210 l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~  242 (462)
T PRK10436        210 FRQALQQPQGLILVTGPTGSGKTVTLYSALQTL  242 (462)
T ss_pred             HHHHHHhcCCeEEEECCCCCChHHHHHHHHHhh
Confidence            555666777855 55999999999876644444

>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=90.01  E-value=0.67  Score=42.06  Aligned_cols=32  Identities=25%  Similarity=0.191  Sum_probs=19.4

Q ss_pred             HHhhhhhheeccccCCCchhhHHHHHHHHHHHHh
Q psy4734         178 IFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAA  211 (367)
Q Consensus       178 ~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~  211 (367)
                      .+....-+++.||+|+|||.+  .++.|+..+..
T Consensus        15 al~~~~~v~~~G~AGTGKT~L--A~a~Al~~v~~   46 (205)
T PF02562_consen   15 ALLNNDLVIVNGPAGTGKTFL--ALAAALELVKE   46 (205)
T ss_dssp             HHHH-SEEEEE--TTSSTTHH--HHHHHHHHHHT
T ss_pred             HHHhCCeEEEECCCCCcHHHH--HHHHHHHHHHh
Confidence            333556677789999999988  45556655543

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK06526 transposase; Provisional

Probab=89.98  E-value=0.19  Score=47.15  Aligned_cols=87  Identities=13%  Similarity=0.147  Sum_probs=49.1

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      ....+++++||+|+|||++...++..+-..         +.+|.+       .+..++...+.   ..+.+|-+...+++
T Consensus        96 ~~~~nlll~Gp~GtGKThLa~al~~~a~~~---------g~~v~f-------~t~~~l~~~l~---~~~~~~~~~~~l~~  156 (254)
T PRK06526         96 TGKENVVFLGPPGTGKTHLAIGLGIRACQA---------GHRVLF-------ATAAQWVARLA---AAHHAGRLQAELVK  156 (254)
T ss_pred             hcCceEEEEeCCCCchHHHHHHHHHHHHHC---------CCchhh-------hhHHHHHHHHH---HHHhcCcHHHHHHH
Confidence            456779999999999999988876544221         112221       23333333221   12344555555555


Q ss_pred             HhcCCCCCceEEEEcC----CCChHhhhhhhhccC
Q psy4734         260 MAVSTTPDRKWIMFDG----PIDAVWIENMNTVLD  290 (367)
Q Consensus       260 ~~~~~~~~~~wivfDG----~~d~~wie~lnsvld  290 (367)
                      .     .....+|+|.    +.+..+.+-|..+++
T Consensus       157 l-----~~~dlLIIDD~g~~~~~~~~~~~L~~li~  186 (254)
T PRK06526        157 L-----GRYPLLIVDEVGYIPFEPEAANLFFQLVS  186 (254)
T ss_pred             h-----ccCCEEEEcccccCCCCHHHHHHHHHHHH
Confidence            4     2347889983    234555555666654

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=89.95  E-value=0.16  Score=50.97  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=21.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ++++++||||+|||++.+.|++.+
T Consensus        48 ~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        48 KNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            678999999999999999998876

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.

>PRK13946 shikimate kinase; Provisional

Probab=89.79  E-value=0.19  Score=44.57  Aligned_cols=25  Identities=32%  Similarity=0.333  Sum_probs=21.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..++++|.+||||||+.+.|++.++
T Consensus        11 ~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         11 RTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            3578889999999999999998873

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=89.79  E-value=0.3  Score=45.75  Aligned_cols=48  Identities=25%  Similarity=0.334  Sum_probs=31.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccce
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGE  240 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~  240 (367)
                      -+-+.||||+||||++..|...+..-         +.+|-+.-++|.+. |-+.++|.
T Consensus        31 ~iGiTG~PGaGKSTli~~l~~~~~~~---------g~~VaVlAVDPSSp~tGGAlLGD   79 (266)
T PF03308_consen   31 VIGITGPPGAGKSTLIDALIRELRER---------GKRVAVLAVDPSSPFTGGALLGD   79 (266)
T ss_dssp             EEEEEE-TTSSHHHHHHHHHHHHHHT---------T--EEEEEE-GGGGCC---SS--
T ss_pred             EEEeeCCCCCcHHHHHHHHHHHHhhc---------CCceEEEEECCCCCCCCCccccc
Confidence            35578999999999999988877532         34688888999974 77888885

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=89.77  E-value=0.17  Score=45.61  Aligned_cols=22  Identities=32%  Similarity=0.300  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++++..+
T Consensus        28 ~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          28 YGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            4578999999999999987544

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.

>KOG0743|consensus

Probab=89.76  E-value=0.14  Score=51.20  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=22.3

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.|-++.||||+|||+.+.++|..|
T Consensus       234 wKRGYLLYGPPGTGKSS~IaAmAn~L  259 (457)
T KOG0743|consen  234 WKRGYLLYGPPGTGKSSFIAAMANYL  259 (457)
T ss_pred             hhccceeeCCCCCCHHHHHHHHHhhc
Confidence            45788999999999999998887665

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=89.72  E-value=0.62  Score=48.33  Aligned_cols=156  Identities=14%  Similarity=0.156  Sum_probs=83.1

Q ss_pred             hHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcc----ccccceecc---ccc
Q psy4734         174 HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITM----GQLYGEFDS---ASH  246 (367)
Q Consensus       174 ~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~----~~l~G~~d~---~~~  246 (367)
                      ++.+.......|++.|++|+||+.+.+.+..+-    ...       .-.+..+|+.+++-    .+|||+...   ...
T Consensus       219 ~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~s----~r~-------~~pfv~inca~~~~~~~e~elFG~~~~~~~~~~  287 (520)
T PRK10820        219 QARKLAMLDAPLLITGDTGTGKDLLAYACHLRS----PRG-------KKPFLALNCASIPDDVVESELFGHAPGAYPNAL  287 (520)
T ss_pred             HHHHHhCCCCCEEEECCCCccHHHHHHHHHHhC----CCC-------CCCeEEeccccCCHHHHHHHhcCCCCCCcCCcc
Confidence            455555667779999999999999987754321    111       11244578887753    467885421   111


Q ss_pred             ccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-CCc---
Q psy4734         247 EWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-LEF---  320 (367)
Q Consensus       247 ~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-l~~---  320 (367)
                      +...|++..    +      ..--+++|  +.+++.--..|-.++.+...-.+  |+.-..+.++|+|+-++. +..   
T Consensus       288 ~~~~g~~e~----a------~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~--g~~~~~~~~vRiI~st~~~l~~l~~  355 (520)
T PRK10820        288 EGKKGFFEQ----A------NGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRV--GEDHEVHVDVRVICATQKNLVELVQ  355 (520)
T ss_pred             cCCCChhhh----c------CCCEEEEeChhhCCHHHHHHHHHHHhcCCcccC--CCCcceeeeeEEEEecCCCHHHHHH
Confidence            344554422    1      12347788  33455544555556666544333  322234557888885532 211   


Q ss_pred             ---cCcchhhce--eeEEecccC---CchHHHHHHHHHHh
Q psy4734         321 ---ASPATVSRV--GMIYFELKC---ISWTTFFLSYQNEL  352 (367)
Q Consensus       321 ---asPatvsRc--g~v~~~~~~---~~~~~~~~swl~~~  352 (367)
                         ..+....|.  ..|.+.|-.   =.-.+++..+++..
T Consensus       356 ~g~f~~dL~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~  395 (520)
T PRK10820        356 KGEFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARF  395 (520)
T ss_pred             cCCccHHHHhhcCeeEEeCCCcccChhHHHHHHHHHHHHH
Confidence               234455553  344554421   12455666666544

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=89.72  E-value=0.19  Score=45.05  Aligned_cols=24  Identities=21%  Similarity=0.209  Sum_probs=19.6

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-++++||+|+||||.++.+....
T Consensus        29 ef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884          29 EFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhh
Confidence            336788999999999999876554

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

Probab=89.69  E-value=0.18  Score=51.07  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=22.0

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...+++|.||||+|||++.+.++..+
T Consensus       216 ~p~gVLL~GPPGTGKT~LAraIA~el  241 (438)
T PTZ00361        216 PPKGVILYGPPGTGKTLLAKAVANET  241 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            44679999999999999999887654

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=89.65  E-value=0.17  Score=45.73  Aligned_cols=23  Identities=30%  Similarity=0.249  Sum_probs=19.4

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++++..+
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCc
Confidence            36678999999999999988654

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=89.62  E-value=0.18  Score=45.83  Aligned_cols=23  Identities=22%  Similarity=0.137  Sum_probs=19.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++++..+
T Consensus        15 ~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         15 HIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            35678999999999999987644

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=89.62  E-value=0.2  Score=44.59  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.||+|+||||+.+.|.+..
T Consensus         7 ~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           7 IVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            3456999999999999988766

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=89.61  E-value=0.25  Score=41.57  Aligned_cols=24  Identities=33%  Similarity=0.396  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +++.|++|+|||++...++.....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~   25 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT   25 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHh
Confidence            467899999999998888766543

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.

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=89.60  E-value=0.28  Score=48.69  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=21.4

Q ss_pred             hhhh-heeccccCCCchhhHHHHHHHHHH
Q psy4734         181 VRHG-LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       181 ~~~~-v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ...| +++.||+||||||+++.|...+..
T Consensus       147 ~~~GlilI~G~TGSGKTT~l~al~~~i~~  175 (372)
T TIGR02525       147 PAAGLGLICGETGSGKSTLAASIYQHCGE  175 (372)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3455 456799999999999888776643

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>PRK08356 hypothetical protein; Provisional

Probab=89.53  E-value=0.2  Score=44.82  Aligned_cols=19  Identities=37%  Similarity=0.410  Sum_probs=16.5

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|||||||||+.+.|+
T Consensus         8 i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          8 VGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4578999999999998884

>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria

Probab=89.51  E-value=0.19  Score=43.30  Aligned_cols=23  Identities=26%  Similarity=0.284  Sum_probs=18.5

Q ss_pred             hhhheeccccCCCchhhHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      ..|+++.|++|+||||+...|.+
T Consensus        14 g~gvLi~G~sG~GKStlal~L~~   36 (149)
T cd01918          14 GIGVLITGPSGIGKSELALELIK   36 (149)
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999998655443

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=89.48  E-value=0.19  Score=45.31  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||++++|+..+
T Consensus        29 ~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          29 FGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999988643

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=89.48  E-value=0.18  Score=45.38  Aligned_cols=23  Identities=26%  Similarity=0.267  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++||||||++++++..+
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36678999999999999987643

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK09862 putative ATP-dependent protease; Provisional

Probab=89.47  E-value=0.35  Score=49.82  Aligned_cols=136  Identities=13%  Similarity=0.154  Sum_probs=78.2

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEe-------------------C-CCCCccccccc
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKII-------------------N-PKSITMGQLYG  239 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~i-------------------n-pka~t~~~l~G  239 (367)
                      ...+.++++|++|+|||++.+.+...+.......       .+....|                   . +.+.|...|+|
T Consensus       208 ~~G~~llliG~~GsGKTtLak~L~gllpp~~g~e-------~le~~~i~s~~g~~~~~~~~~~rPfr~ph~~~s~~~l~G  280 (506)
T PRK09862        208 AGGHNLLLIGPPGTGKTMLASRINGLLPDLSNEE-------ALESAAILSLVNAESVQKQWRQRPFRSPHHSASLTAMVG  280 (506)
T ss_pred             cCCcEEEEECCCCCcHHHHHHHHhccCCCCCCcE-------EEecchhhhhhccccccCCcCCCCccCCCccchHHHHhC
Confidence            3456688999999999999988775543222110       1111111                   1 11234444555


Q ss_pred             eecccccccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC
Q psy4734         240 EFDSASHEWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN  317 (367)
Q Consensus       240 ~~d~~~~~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~  317 (367)
                      .=    ...+-|.++.          .+.-.+++|  ...++.-.+.|...|++.....-..|..+..|.++++|--+.-
T Consensus       281 Gg----~~~~pG~l~~----------A~gGvLfLDEi~e~~~~~~~~L~~~LE~g~v~I~r~g~~~~~pa~f~lIAa~NP  346 (506)
T PRK09862        281 GG----AIPGPGEISL----------AHNGVLFLDELPEFERRTLDALREPIESGQIHLSRTRAKITYPARFQLVAAMNP  346 (506)
T ss_pred             CC----ceehhhHhhh----------ccCCEEecCCchhCCHHHHHHHHHHHHcCcEEEecCCcceeccCCEEEEEeecC
Confidence            31    1122333222          123467778  3457777888888887776655555666677778877754432


Q ss_pred             C---------------------CccCcchhhceee-EEecc
Q psy4734         318 L---------------------EFASPATVSRVGM-IYFEL  336 (367)
Q Consensus       318 l---------------------~~asPatvsRcg~-v~~~~  336 (367)
                      -                     ...|++.+.|+.| |.+++
T Consensus       347 ~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLDRfdL~v~v~~  387 (506)
T PRK09862        347 SPTGHYQGNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPL  387 (506)
T ss_pred             ccceecCCCCCCcCHHHHHHHHhhCCHhHHhhccEEEEeCC
Confidence            2                     2366788899988 44543

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=89.47  E-value=0.18  Score=45.23  Aligned_cols=22  Identities=32%  Similarity=0.416  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        29 ~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          29 IALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6678999999999999987543

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=89.46  E-value=0.23  Score=43.84  Aligned_cols=23  Identities=35%  Similarity=0.305  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++||||||+++.|...+.
T Consensus         9 i~ivG~sgsGKTTLi~~li~~l~   31 (173)
T PRK10751          9 LAIAAWSGTGKTTLLKKLIPALC   31 (173)
T ss_pred             EEEECCCCChHHHHHHHHHHHHh
Confidence            45789999999999998887764

>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=89.46  E-value=0.18  Score=44.60  Aligned_cols=19  Identities=32%  Similarity=0.272  Sum_probs=16.5

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++||+||||||+++++.
T Consensus        24 ~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          24 VVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            5578999999999999873

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.

>PRK06620 hypothetical protein; Validated

Probab=89.46  E-value=0.19  Score=45.86  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=18.0

Q ss_pred             hhheeccccCCCchhhHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      ..+++.||+|+|||++.++.+.
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~   66 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQN   66 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHh
Confidence            3478999999999999886443

>PRK01184 hypothetical protein; Provisional

Probab=89.44  E-value=0.2  Score=44.05  Aligned_cols=23  Identities=13%  Similarity=0.196  Sum_probs=17.5

Q ss_pred             ceEEEEcCCCChHhhhhhhhccC
Q psy4734         268 RKWIMFDGPIDAVWIENMNTVLD  290 (367)
Q Consensus       268 ~~wivfDG~~d~~wie~lnsvld  290 (367)
                      ..-+|+||.....+++.+..+++
T Consensus        80 ~~~vvidg~r~~~e~~~~~~~~~  102 (184)
T PRK01184         80 DEVVVIDGVRGDAEVEYFRKEFP  102 (184)
T ss_pred             CCcEEEeCCCCHHHHHHHHHhCC
Confidence            46799999878888887766554

>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=89.44  E-value=0.18  Score=44.71  Aligned_cols=23  Identities=43%  Similarity=0.449  Sum_probs=19.0

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++++..+
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            36688999999999999877543

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=89.43  E-value=0.24  Score=48.11  Aligned_cols=25  Identities=36%  Similarity=0.360  Sum_probs=21.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .-++++||+|+||||+...|+..+.
T Consensus       115 ~vi~lvGpnGsGKTTt~~kLA~~l~  139 (318)
T PRK10416        115 FVILVVGVNGVGKTTTIGKLAHKYK  139 (318)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHH
Confidence            3477889999999999999998775

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=89.41  E-value=0.18  Score=43.52  Aligned_cols=21  Identities=33%  Similarity=0.491  Sum_probs=16.3

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.+.|.+|+||||+++.|++.
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            467899999999999988865

>TIGR00017 cmk cytidylate kinase

Probab=89.41  E-value=0.22  Score=45.60  Aligned_cols=23  Identities=30%  Similarity=0.430  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.||+||||||+.+.|++.++
T Consensus         5 i~i~G~~GsGKst~~~~la~~~~   27 (217)
T TIGR00017         5 IAIDGPSGAGKSTVAKAVAEKLG   27 (217)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45779999999999999987663

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>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=89.40  E-value=0.2  Score=44.57  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=17.3

Q ss_pred             hhhheeccccCCCchhhHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +..++++||+|||||+++..|..
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~   25 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVN   25 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHH
T ss_pred             CceEEEEcCCCCCHHHHHHHHhc
Confidence            56789999999999999877653

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.

>KOG0744|consensus

Probab=89.39  E-value=0.2  Score=48.41  Aligned_cols=27  Identities=26%  Similarity=0.330  Sum_probs=21.4

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ...-+++.||||+|||++.+.|+..|+
T Consensus       176 ~NRliLlhGPPGTGKTSLCKaLaQkLS  202 (423)
T KOG0744|consen  176 WNRLILLHGPPGTGKTSLCKALAQKLS  202 (423)
T ss_pred             eeeEEEEeCCCCCChhHHHHHHHHhhe
Confidence            334466779999999999999887664

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=89.37  E-value=0.25  Score=44.78  Aligned_cols=25  Identities=28%  Similarity=0.238  Sum_probs=20.9

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...+++.||+|+|||++.+.++...
T Consensus        38 ~~~lll~G~~G~GKT~la~~~~~~~   62 (226)
T TIGR03420        38 DRFLYLWGESGSGKSHLLQAACAAA   62 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4568889999999999998877654

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.

>KOG1534|consensus

Probab=89.36  E-value=0.27  Score=44.64  Aligned_cols=41  Identities=15%  Similarity=0.229  Sum_probs=29.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI  232 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~  232 (367)
                      -+.++.||+||||||-...+......+++         .+....++|.|.
T Consensus         4 ya~lV~GpAgSGKSTyC~~~~~h~e~~gR---------s~~vVNLDPAae   44 (273)
T KOG1534|consen    4 YAQLVMGPAGSGKSTYCSSMYEHCETVGR---------SVHVVNLDPAAE   44 (273)
T ss_pred             eeEEEEccCCCCcchHHHHHHHHHHhhCc---------eeEEeecCHHHH
Confidence            35677899999999988888777766644         344445566654

>PHA00729 NTP-binding motif containing protein

Probab=89.35  E-value=0.23  Score=45.69  Aligned_cols=24  Identities=25%  Similarity=0.281  Sum_probs=20.8

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+++.|+||+|||++...|+.++.
T Consensus        19 nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         19 SAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478889999999999999888764

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=89.34  E-value=0.25  Score=47.00  Aligned_cols=26  Identities=31%  Similarity=0.270  Sum_probs=21.6

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .-++|+||+|+||||++..|+..+..
T Consensus       195 ~vi~~vGptGvGKTTt~~kLa~~~~~  220 (282)
T TIGR03499       195 GVIALVGPTGVGKTTTLAKLAARFVL  220 (282)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            35778899999999999988877643

>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=89.32  E-value=0.21  Score=43.14  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      |.+.||+||||||+...+..++
T Consensus        31 vtlMGPSGcGKSTLls~~~G~L   52 (213)
T COG4136          31 VTLMGPSGCGKSTLLSWMIGAL   52 (213)
T ss_pred             EEEECCCCccHHHHHHHHHhhc
Confidence            6788999999999988877666

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=89.31  E-value=0.19  Score=45.47  Aligned_cols=22  Identities=27%  Similarity=0.333  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++|+..+
T Consensus        32 ~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        32 VFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999988654

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=89.30  E-value=0.19  Score=44.49  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||+||||||++++++..+
T Consensus        21 ~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        21 LALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999887543

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=89.27  E-value=0.21  Score=48.21  Aligned_cols=84  Identities=19%  Similarity=0.346  Sum_probs=50.4

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      ..|+.+.|++|+|||.+...++..+...         +..|.+..       +.+|+..+-   ..+.||-+...++.. 
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~---------g~~v~~~~-------~~~l~~~lk---~~~~~~~~~~~l~~l-  215 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKK---------GVSSTLLH-------FPEFIRELK---NSISDGSVKEKIDAV-  215 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHc---------CCCEEEEE-------HHHHHHHHH---HHHhcCcHHHHHHHh-
Confidence            4689999999999999998888776522         12343322       233333321   234555566666655 


Q ss_pred             cCCCCCceEEEEcCCC----ChHhh--hhhhhccC
Q psy4734         262 VSTTPDRKWIMFDGPI----DAVWI--ENMNTVLD  290 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~----d~~wi--e~lnsvld  290 (367)
                          .....+|+| ++    -..|.  +-|..+++
T Consensus       216 ----~~~dlLiID-DiG~e~~s~~~~~~ll~~Il~  245 (306)
T PRK08939        216 ----KEAPVLMLD-DIGAEQMSSWVRDEVLGVILQ  245 (306)
T ss_pred             ----cCCCEEEEe-cCCCccccHHHHHHHHHHHHH
Confidence                345899999 33    33465  34565554

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=89.25  E-value=0.24  Score=47.43  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=20.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||+.++|...+..
T Consensus        65 IGIaG~~GSGKSTlar~L~~ll~~   88 (290)
T TIGR00554        65 ISIAGSVAVGKSTTARILQALLSR   88 (290)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            446799999999999998877754

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=89.25  E-value=0.19  Score=46.25  Aligned_cols=23  Identities=22%  Similarity=0.309  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+||||||++++|+..+
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        30 FVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            36678999999999999987654

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=89.24  E-value=0.21  Score=44.69  Aligned_cols=22  Identities=32%  Similarity=0.323  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            3467999999999999988875

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=89.23  E-value=0.67  Score=40.06  Aligned_cols=43  Identities=21%  Similarity=0.230  Sum_probs=30.5

Q ss_pred             ccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccc
Q psy4734         188 VGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG  239 (367)
Q Consensus       188 ~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G  239 (367)
                      .+.+|+||||+.-.|+.++...         +.+|.....+|..-+...++|
T Consensus         6 ~~kgG~GKtt~a~~la~~l~~~---------g~~vllvD~D~~~~~~~~~~~   48 (179)
T cd02036           6 SGKGGVGKTTTTANLGTALAQL---------GYKVVLIDADLGLRNLDLILG   48 (179)
T ss_pred             eCCCCCCHHHHHHHHHHHHHhC---------CCeEEEEeCCCCCCCchhhcc
Confidence            3678999999999999888643         346777777886444444554

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=89.18  E-value=0.2  Score=45.09  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||+|+||||++++|+..+
T Consensus        30 ~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          30 VLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6678999999999999987644

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>COG0283 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=89.17  E-value=0.2  Score=45.54  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +-+-||+||||||+.+.|++.|+
T Consensus         7 IAIDGPagsGKsTvak~lA~~Lg   29 (222)
T COG0283           7 IAIDGPAGSGKSTVAKILAEKLG   29 (222)
T ss_pred             EEEeCCCccChHHHHHHHHHHhC
Confidence            44669999999999999998773

>PLN03210 Resistant to P

Probab=89.15  E-value=1.5  Score=49.87  Aligned_cols=23  Identities=35%  Similarity=0.212  Sum_probs=19.1

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|.||||+++.+...+
T Consensus       209 vvgI~G~gGiGKTTLA~~l~~~l  231 (1153)
T PLN03210        209 MVGIWGSSGIGKTTIARALFSRL  231 (1153)
T ss_pred             EEEEEcCCCCchHHHHHHHHHHH
Confidence            36678999999999999886544

syringae 6; Provisional

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=89.15  E-value=0.2  Score=46.00  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++|+..+
T Consensus        29 ~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          29 LAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6688999999999999987544

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.

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=89.14  E-value=0.22  Score=51.13  Aligned_cols=32  Identities=28%  Similarity=0.499  Sum_probs=24.0

Q ss_pred             HHHHHhhhhhh-eeccccCCCchhhHHHHHHHH
Q psy4734         175 LKKIFEVRHGL-MVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       175 l~k~~~~~~~v-~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++....+|+ ++.||+||||||+++.+...+
T Consensus       234 l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l  266 (486)
T TIGR02533       234 FERLIRRPHGIILVTGPTGSGKTTTLYAALSRL  266 (486)
T ss_pred             HHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhcc
Confidence            55667777885 567999999999987654444

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=89.11  E-value=0.42  Score=47.67  Aligned_cols=43  Identities=23%  Similarity=0.179  Sum_probs=28.7

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCC
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPK  230 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpk  230 (367)
                      .-++++||+|+||||++.-|+..+......     ++.+|.+..+++-
T Consensus       175 ~vi~lvGptGvGKTTT~aKLA~~~~~~~~~-----~g~~V~lit~Dt~  217 (388)
T PRK12723        175 RVFILVGPTGVGKTTTIAKLAAIYGINSDD-----KSLNIKIITIDNY  217 (388)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhhhcc-----CCCeEEEEeccCc
Confidence            347789999999999999888776543211     1235655555553

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=89.10  E-value=0.2  Score=45.85  Aligned_cols=24  Identities=21%  Similarity=0.220  Sum_probs=20.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.++||+|+||||++++|+..+
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          32 EIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            346688999999999999988654

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=89.08  E-value=0.2  Score=45.47  Aligned_cols=22  Identities=32%  Similarity=0.449  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
T Consensus        29 ~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          29 VALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999987554

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=89.08  E-value=0.2  Score=45.15  Aligned_cols=22  Identities=41%  Similarity=0.483  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||++++++..+
T Consensus        31 ~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        31 LFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6688999999999999987644

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=89.08  E-value=0.21  Score=44.76  Aligned_cols=23  Identities=26%  Similarity=0.244  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++|+..+
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36688999999999999987644

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=89.07  E-value=0.23  Score=43.79  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=20.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.|+||+|+|||++.+.|.+..
T Consensus         3 r~ivl~Gpsg~GK~~l~~~L~~~~   26 (183)
T PF00625_consen    3 RPIVLVGPSGSGKSTLAKRLIQEF   26 (183)
T ss_dssp             SEEEEESSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhc
Confidence            457789999999999999887654

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=89.07  E-value=0.16  Score=47.73  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +-++||.||||||++++++..+.
T Consensus        31 ~~iiGpNG~GKSTLLk~l~g~l~   53 (258)
T COG1120          31 TGILGPNGSGKSTLLKCLAGLLK   53 (258)
T ss_pred             EEEECCCCCCHHHHHHHHhccCC
Confidence            55779999999999999887664

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=89.07  E-value=0.3  Score=51.21  Aligned_cols=32  Identities=25%  Similarity=0.352  Sum_probs=23.5

Q ss_pred             HHHHHhhhhhhe-eccccCCCchhhHHHHHHHH
Q psy4734         175 LKKIFEVRHGLM-VVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       175 l~k~~~~~~~v~-~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++....+|++ +.||+||||||++..+...+
T Consensus       308 l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~  340 (564)
T TIGR02538       308 FLEAIHKPQGMVLVTGPTGSGKTVSLYTALNIL  340 (564)
T ss_pred             HHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            455566677865 66999999999976655544

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>PRK06761 hypothetical protein; Provisional

Probab=89.02  E-value=0.22  Score=47.50  Aligned_cols=23  Identities=30%  Similarity=0.371  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.+.
T Consensus         6 IvI~G~~GsGKTTla~~L~~~L~   28 (282)
T PRK06761          6 IIIEGLPGFGKSTTAKMLNDILS   28 (282)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcC
Confidence            56779999999999999998774

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=89.00  E-value=0.38  Score=43.15  Aligned_cols=34  Identities=26%  Similarity=0.370  Sum_probs=24.3

Q ss_pred             HHHHHhhhhh-heeccccCCCchhhHHHHHHHHHH
Q psy4734         175 LKKIFEVRHG-LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       175 l~k~~~~~~~-v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +..++.+... ..+.|++|+|||++++.+..++..
T Consensus        10 ~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~   44 (196)
T PF13604_consen   10 VRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEA   44 (196)
T ss_dssp             HHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHh
Confidence            3344444443 556699999999999988877755

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=88.98  E-value=0.21  Score=45.06  Aligned_cols=22  Identities=36%  Similarity=0.338  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        29 ~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          29 LALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6688999999999999987644

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG2035|consensus

Probab=88.98  E-value=1.8  Score=41.08  Aligned_cols=136  Identities=20%  Similarity=0.225  Sum_probs=73.0

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhh--c-----cccccceeEEEEeCCCCCccccccceecccccccccc-hHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKK--S-----ATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDG-ILAKT  256 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~--~-----~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dG-il~~~  256 (367)
                      +++.||+|+||-|.+-+|-+.+--.+-.+  .     .++...++++..+..      ..+=.++|...+..|- +.-.+
T Consensus        37 ll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS------~yHlEitPSDaG~~DRvViQel  110 (351)
T KOG2035|consen   37 LLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSS------NYHLEITPSDAGNYDRVVIQEL  110 (351)
T ss_pred             EEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecc------cceEEeChhhcCcccHHHHHHH
Confidence            67889999999888777655442211000  0     112222233222111      1111233433333333 56667


Q ss_pred             HHHHhcCCC------CCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee
Q psy4734         257 FREMAVSTT------PDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG  330 (367)
Q Consensus       257 ~r~~~~~~~------~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg  330 (367)
                      +.+.+....      ..-|=+|+. ..|..--|.=..+   .+++     |  +-..++|+|.=..+++.+.|+.-|||-
T Consensus       111 lKevAQt~qie~~~qr~fKvvvi~-ead~LT~dAQ~aL---RRTM-----E--kYs~~~RlIl~cns~SriIepIrSRCl  179 (351)
T KOG2035|consen  111 LKEVAQTQQIETQGQRPFKVVVIN-EADELTRDAQHAL---RRTM-----E--KYSSNCRLILVCNSTSRIIEPIRSRCL  179 (351)
T ss_pred             HHHHHhhcchhhccccceEEEEEe-chHhhhHHHHHHH---HHHH-----H--HHhcCceEEEEecCcccchhHHhhhee
Confidence            777765421      122445554 3333322221111   0000     1  346789999999999999999999999


Q ss_pred             eEEeccc
Q psy4734         331 MIYFELK  337 (367)
Q Consensus       331 ~v~~~~~  337 (367)
                      +|.+.+.
T Consensus       180 ~iRvpap  186 (351)
T KOG2035|consen  180 FIRVPAP  186 (351)
T ss_pred             EEeCCCC
Confidence            9999743

>PRK13531 regulatory ATPase RavA; Provisional

Probab=88.93  E-value=0.4  Score=49.02  Aligned_cols=33  Identities=9%  Similarity=-0.044  Sum_probs=27.1

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +-.+......+++.||||+|||++.+.|+.+..
T Consensus        32 ll~aalag~hVLL~GpPGTGKT~LAraLa~~~~   64 (498)
T PRK13531         32 CLLAALSGESVFLLGPPGIAKSLIARRLKFAFQ   64 (498)
T ss_pred             HHHHHccCCCEEEECCCChhHHHHHHHHHHHhc
Confidence            444556777799999999999999999888764

>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=88.89  E-value=0.53  Score=44.19  Aligned_cols=25  Identities=28%  Similarity=0.183  Sum_probs=19.0

Q ss_pred             hhhhheeccccCCCchhhHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ...-+.+.|.+|.|||++...++..
T Consensus        18 ~~~~v~I~G~~G~GKT~LA~~~~~~   42 (287)
T PF00931_consen   18 EVRVVAIVGMGGIGKTTLARQVARD   42 (287)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHCH
T ss_pred             CeEEEEEEcCCcCCcceeeeecccc
Confidence            3455778899999999998765543

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.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=88.88  E-value=0.32  Score=52.19  Aligned_cols=119  Identities=15%  Similarity=0.233  Sum_probs=66.3

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceeccc-ccc--
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDSA-SHE--  247 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~~-~~~--  247 (367)
                      +.+.-.....|++.|++|+|||++.+.+...    ....       .-.+..+|+.+++    -.++||..... ++.  
T Consensus       392 ~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~----s~r~-------~~~~v~i~c~~~~~~~~~~~lfg~~~~~~~g~~~  460 (686)
T PRK15429        392 VEMVAQSDSTVLILGETGTGKELIARAIHNL----SGRN-------NRRMVKMNCAAMPAGLLESDLFGHERGAFTGASA  460 (686)
T ss_pred             HHHHhCCCCCEEEECCCCcCHHHHHHHHHHh----cCCC-------CCCeEEEecccCChhHhhhhhcCccccccccccc
Confidence            3344456667999999999999987765442    2111       1124456776664    34678753211 010  


Q ss_pred             cccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecC
Q psy4734         248 WRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECE  316 (367)
Q Consensus       248 W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~  316 (367)
                      -.-|.+    ..      .+.--+++|  +.++..--..|-.++++...-.+.+..  ..+.++|+|+-++
T Consensus       461 ~~~g~l----e~------a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~--~~~~~~RiI~~t~  519 (686)
T PRK15429        461 QRIGRF----EL------ADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNK--IIQTDVRLIAATN  519 (686)
T ss_pred             chhhHH----Hh------cCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCC--cccceEEEEEeCC
Confidence            011211    11      122458888  445666666777777776554444333  3456788887663

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=88.86  E-value=0.22  Score=44.88  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
T Consensus        29 ~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          29 VVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999988654

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=88.83  E-value=0.22  Score=45.82  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
T Consensus        30 ~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          30 VALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             EEEECCCCCCHHHHHHHHhCCc
Confidence            6678999999999999988654

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=88.82  E-value=0.26  Score=41.03  Aligned_cols=35  Identities=29%  Similarity=0.285  Sum_probs=26.0

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.+.+....-+.+.|+-|+||||..+.++++++.-
T Consensus         8 l~~~l~~g~vi~L~GdLGaGKTtf~r~l~~~lg~~   42 (123)
T PF02367_consen    8 LAQILKPGDVILLSGDLGAGKTTFVRGLARALGID   42 (123)
T ss_dssp             HHHHHSS-EEEEEEESTTSSHHHHHHHHHHHTT--
T ss_pred             HHHhCCCCCEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            44445555568888999999999999999988543

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=88.79  E-value=0.22  Score=45.15  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++++..+
T Consensus        34 ~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        34 VAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999987654

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=88.77  E-value=0.23  Score=51.15  Aligned_cols=25  Identities=28%  Similarity=0.449  Sum_probs=21.4

Q ss_pred             hhhhheeccccCCCchhhHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ...|+++.||||+|||++.+.++..
T Consensus        87 ~~~giLL~GppGtGKT~la~alA~~  111 (495)
T TIGR01241        87 IPKGVLLVGPPGTGKTLLAKAVAGE  111 (495)
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999988754

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.

>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=88.75  E-value=0.23  Score=43.65  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=19.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++|++|+||||++++|+..+
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          27 EIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            336688999999999999987543

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.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=88.74  E-value=0.22  Score=45.19  Aligned_cols=22  Identities=32%  Similarity=0.324  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++++..+
T Consensus        33 ~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          33 VALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999987543

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.

>PRK09183 transposase/IS protein; Provisional

Probab=88.71  E-value=0.26  Score=46.33  Aligned_cols=27  Identities=26%  Similarity=0.230  Sum_probs=21.7

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .....++++||+|+|||++...++...
T Consensus       100 ~~~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        100 ERNENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             hcCCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            345678899999999999998886543

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=88.71  E-value=0.23  Score=45.14  Aligned_cols=22  Identities=32%  Similarity=0.403  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        29 ~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          29 FGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6688999999999999987643

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=88.68  E-value=0.23  Score=46.35  Aligned_cols=23  Identities=35%  Similarity=0.436  Sum_probs=19.0

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.+.||+|+||||+.+.+...+
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~l   67 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKRL   67 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhc
Confidence            36788999999999998876554

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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=88.67  E-value=0.23  Score=44.78  Aligned_cols=23  Identities=30%  Similarity=0.286  Sum_probs=19.4

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|+||||++++|+..+
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36688999999999999988644

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>PLN02674 adenylate kinase

Probab=88.65  E-value=0.22  Score=46.44  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=19.9

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+++.|||||||+|..+.|++.+
T Consensus        33 ~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         33 RLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc
Confidence            37788999999999999888765

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=88.61  E-value=0.29  Score=44.08  Aligned_cols=24  Identities=25%  Similarity=0.623  Sum_probs=20.1

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.+.||+|+||||++++++...
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHH
Confidence            446788999999999999997644

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

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=88.53  E-value=0.23  Score=44.94  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++++..+
T Consensus        31 ~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          31 FGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6688999999999999988654

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=88.51  E-value=0.48  Score=44.91  Aligned_cols=25  Identities=36%  Similarity=0.421  Sum_probs=21.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++++|++|+||||+...|+..+.
T Consensus        73 ~vi~l~G~~G~GKTTt~akLA~~l~   97 (272)
T TIGR00064        73 NVILFVGVNGVGKTTTIAKLANKLK   97 (272)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4577889999999999988887764

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=88.48  E-value=0.23  Score=41.37  Aligned_cols=20  Identities=35%  Similarity=0.454  Sum_probs=16.9

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.++|++|+|||++++.+..
T Consensus         2 i~i~G~~~~GKssl~~~l~~   21 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAG   21 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHcc
Confidence            56889999999999887653

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=88.46  E-value=0.23  Score=45.15  Aligned_cols=22  Identities=41%  Similarity=0.446  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++|+..+
T Consensus        34 ~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          34 LGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999987543

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>PRK04132 replication factor C small subunit; Provisional

Probab=88.46  E-value=1.3  Score=48.50  Aligned_cols=112  Identities=18%  Similarity=0.248  Sum_probs=68.4

Q ss_pred             ccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccceecccccccccchHHHHHHHHhcCC---C
Q psy4734         190 ESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGEFDSASHEWRDGILAKTFREMAVST---T  265 (367)
Q Consensus       190 ~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~~---~  265 (367)
                      |.+-||||++++|++.+--  .       .....+..+|+... ..+                .+-.++.+++...   +
T Consensus       574 Ph~lGKTT~A~ala~~l~g--~-------~~~~~~lElNASd~rgid----------------~IR~iIk~~a~~~~~~~  628 (846)
T PRK04132        574 PTVLHNTTAALALARELFG--E-------NWRHNFLELNASDERGIN----------------VIREKVKEFARTKPIGG  628 (846)
T ss_pred             CCcccHHHHHHHHHHhhhc--c-------cccCeEEEEeCCCcccHH----------------HHHHHHHHHHhcCCcCC
Confidence            8899999999998876521  0       00112334566542 111                2333333333221   2


Q ss_pred             CCceEEEEcCCCChHhhhhhhhccCCCCceeecccceee-cCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         266 PDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIK-MSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       266 ~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~-l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                      ...+-+|+| .+|..-.+.-|.++.           .+. .+.+++||+-+.+.....|+..|||-++.+.+-.
T Consensus       629 ~~~KVvIID-EaD~Lt~~AQnALLk-----------~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls  690 (846)
T PRK04132        629 ASFKIIFLD-EADALTQDAQQALRR-----------TMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLR  690 (846)
T ss_pred             CCCEEEEEE-CcccCCHHHHHHHHH-----------HhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCC
Confidence            245899999 555444444444321           122 2457889999999999999999999999998754

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=88.45  E-value=0.22  Score=44.97  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||+|+||||++++|+..+
T Consensus        28 ~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          28 LAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             EEEECCCCCCHHHHHHHHcCCC
Confidence            6678999999999999987543

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=88.44  E-value=0.23  Score=45.63  Aligned_cols=21  Identities=29%  Similarity=0.384  Sum_probs=18.6

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||++++|+..
T Consensus        29 ~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        29 HAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            668899999999999998764

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=88.43  E-value=0.29  Score=43.81  Aligned_cols=24  Identities=33%  Similarity=0.332  Sum_probs=20.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.++|++||||||+.+.|+..+.
T Consensus        26 ~i~i~G~~GsGKSTla~~l~~~l~   49 (198)
T PRK03846         26 VLWFTGLSGSGKSTVAGALEEALH   49 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            356779999999999999988774

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=88.42  E-value=0.36  Score=41.90  Aligned_cols=25  Identities=32%  Similarity=0.280  Sum_probs=21.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.|.|.+||||||+.+.|.+.|...
T Consensus         5 IwltGlsGsGKtTlA~~L~~~L~~~   29 (156)
T PF01583_consen    5 IWLTGLSGSGKTTLARALERRLFAR   29 (156)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHc
Confidence            5678999999999999999888654

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>PRK12377 putative replication protein; Provisional

Probab=88.41  E-value=0.37  Score=45.08  Aligned_cols=26  Identities=15%  Similarity=0.226  Sum_probs=22.4

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..+++|.|++|+|||.+...++..+.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~  126 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLL  126 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            46789999999999999998887764

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=88.32  E-value=0.23  Score=45.57  Aligned_cols=22  Identities=27%  Similarity=0.381  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
T Consensus        29 ~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219          29 HGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             EEEECCCCCCHHHHHHHHcCCC
Confidence            6678999999999999987544

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=88.28  E-value=0.25  Score=45.03  Aligned_cols=22  Identities=27%  Similarity=0.231  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        29 ~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          29 TALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            6678999999999999988765

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=88.24  E-value=0.25  Score=45.61  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      |-++|++|+||||++++++..
T Consensus        33 VaiIG~SGaGKSTLLR~lngl   53 (258)
T COG3638          33 VAIIGPSGAGKSTLLRSLNGL   53 (258)
T ss_pred             EEEECCCCCcHHHHHHHHhcc
Confidence            567899999999999998864

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=88.21  E-value=0.25  Score=45.28  Aligned_cols=22  Identities=32%  Similarity=0.362  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++|+..+
T Consensus        38 ~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         38 MAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6678999999999999988654

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=88.21  E-value=0.25  Score=44.65  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        34 ~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          34 TGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             EEEECCCCCCHHHHHHHHhCCc
Confidence            6688999999999999987644

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>PRK13768 GTPase; Provisional

Probab=88.21  E-value=0.51  Score=44.18  Aligned_cols=39  Identities=23%  Similarity=0.342  Sum_probs=28.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS  231 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka  231 (367)
                      .+.+.|++|+||||+...++.++...         +.+|.+..++|..
T Consensus         4 ~i~v~G~~G~GKTt~~~~~~~~l~~~---------g~~v~~i~~D~~~   42 (253)
T PRK13768          4 IVFFLGTAGSGKTTLTKALSDWLEEQ---------GYDVAIVNLDPAV   42 (253)
T ss_pred             EEEEECCCCccHHHHHHHHHHHHHhc---------CCceEEEECCCcc
Confidence            35677999999999999988887543         2346666677754

>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=88.15  E-value=0.3  Score=45.39  Aligned_cols=24  Identities=17%  Similarity=0.104  Sum_probs=20.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.++||+|||||++++++.-.+.
T Consensus        27 ~~~IvG~NGsGKStll~Ai~~ll~   50 (251)
T cd03273          27 FNAITGLNGSGKSNILDAICFVLG   50 (251)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Confidence            356889999999999999887763

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=88.09  E-value=0.26  Score=43.84  Aligned_cols=21  Identities=43%  Similarity=0.409  Sum_probs=18.2

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      -+.++|++|+||||++++|+.
T Consensus        35 ~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          35 LTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            366889999999999999874

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG3354|consensus

Probab=88.07  E-value=0.33  Score=42.05  Aligned_cols=24  Identities=33%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.+.|++||||||+-++|++.+.
T Consensus        14 ~i~vmGvsGsGKSTigk~L~~~l~   37 (191)
T KOG3354|consen   14 VIVVMGVSGSGKSTIGKALSEELG   37 (191)
T ss_pred             eEEEEecCCCChhhHHHHHHHHhC
Confidence            345679999999999999998875

>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=88.07  E-value=0.27  Score=43.00  Aligned_cols=23  Identities=26%  Similarity=0.223  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|+||||+.++|+..+
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          28 IYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36688999999999999987543

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.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=88.03  E-value=0.26  Score=45.01  Aligned_cols=22  Identities=23%  Similarity=0.381  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||++++|+..+
T Consensus        29 ~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          29 VGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999988654

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=88.02  E-value=0.31  Score=44.41  Aligned_cols=25  Identities=20%  Similarity=0.246  Sum_probs=21.1

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...+++.|++|+|||++.+.++...
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4568899999999999999887654

>PRK13948 shikimate kinase; Provisional

Probab=88.01  E-value=0.29  Score=43.55  Aligned_cols=25  Identities=20%  Similarity=0.089  Sum_probs=21.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..+.++|.+||||||+-+.|++.++
T Consensus        11 ~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948         11 TWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3467889999999999999988763

>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase

Probab=88.01  E-value=0.35  Score=47.34  Aligned_cols=37  Identities=27%  Similarity=0.354  Sum_probs=29.6

Q ss_pred             cchhhHHHHHhhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         170 RVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       170 ~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .....+..++..+..+++.|++|+||||+++.|...+
T Consensus       166 ~~~~~L~~~v~~~~~ili~G~tGsGKTTll~al~~~i  202 (340)
T TIGR03819       166 GVARLLRAIVAARLAFLISGGTGSGKTTLLSALLALV  202 (340)
T ss_pred             HHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHccC
Confidence            3445577788888889999999999999988876544

Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=87.99  E-value=0.27  Score=42.58  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=19.0

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|+||||++++++..+
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36678999999999999987543

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.

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=87.98  E-value=1.9  Score=37.56  Aligned_cols=92  Identities=20%  Similarity=0.268  Sum_probs=51.8

Q ss_pred             eeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecc-cccccccchHHHHHHHHhcC-
Q psy4734         186 MVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDS-ASHEWRDGILAKTFREMAVS-  263 (367)
Q Consensus       186 ~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~-~~~~W~dGil~~~~r~~~~~-  263 (367)
                      -++|..+|||||++.-+...+..   +      +.+|.+..-.+..       +.+|. .+..|+       +|++... 
T Consensus         6 ~ivG~k~SGKTTLie~lv~~L~~---~------G~rVa~iKH~hh~-------~~~D~~GkDs~r-------~~~aGa~~   62 (161)
T COG1763           6 GIVGYKNSGKTTLIEKLVRKLKA---R------GYRVATVKHAHHD-------FDLDKPGKDTYR-------HRKAGADQ   62 (161)
T ss_pred             EEEecCCCChhhHHHHHHHHHHh---C------CcEEEEEEecCCC-------CCCCCCCCccch-------hhccccce
Confidence            46899999999998887766642   2      3345443222221       33443 333464       4444332 


Q ss_pred             --CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccc
Q psy4734         264 --TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGE  301 (367)
Q Consensus       264 --~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge  301 (367)
                        -...++|.++=+.-+ .-++.+.+.+++.--+.|--|=
T Consensus        63 ~v~~s~~~~~~~~~~~~-~~L~~vl~~l~~~~D~vLVEGF  101 (161)
T COG1763          63 VVVASDHRTALMTRTPD-RDLDAVLSRLDPLLDLVLVEGF  101 (161)
T ss_pred             EEEecCCEEEEEEecCC-cCHHHHHHhcCcccCEEEEecc
Confidence              234567777766666 4456666667665345554443

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=87.96  E-value=0.37  Score=41.61  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++|+||||+...|...+.
T Consensus         2 i~i~G~~gsGKTtl~~~l~~~l~   24 (155)
T TIGR00176         2 LQIVGPKNSGKTTLIERLVKALK   24 (155)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            35789999999999998888775

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=87.96  E-value=0.27  Score=43.79  Aligned_cols=22  Identities=18%  Similarity=0.289  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||+.++++..+
T Consensus        29 ~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         29 TYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5678999999999999987654

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=87.95  E-value=0.27  Score=47.16  Aligned_cols=24  Identities=25%  Similarity=0.254  Sum_probs=19.4

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+-+.||+||||||+++++|.-.
T Consensus        29 e~vaLlGpSGaGKsTlLRiIAGLe   52 (345)
T COG1118          29 ELVALLGPSGAGKSTLLRIIAGLE   52 (345)
T ss_pred             cEEEEECCCCCcHHHHHHHHhCcC
Confidence            336678999999999999987543

>cd04155 Arl3 Arl3 subfamily

Probab=87.93  E-value=0.27  Score=42.23  Aligned_cols=22  Identities=32%  Similarity=0.493  Sum_probs=18.4

Q ss_pred             hhheeccccCCCchhhHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      .-+.++|++|+||||+++.+..
T Consensus        15 ~~v~i~G~~g~GKStLl~~l~~   36 (173)
T cd04155          15 PRILILGLDNAGKTTILKQLAS   36 (173)
T ss_pred             cEEEEEccCCCCHHHHHHHHhc
Confidence            4478899999999999887753

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=87.92  E-value=0.26  Score=45.01  Aligned_cols=23  Identities=39%  Similarity=0.320  Sum_probs=19.6

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++||||||++++|+..+
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        28 VTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36788999999999999988654

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=87.90  E-value=0.15  Score=49.66  Aligned_cols=158  Identities=11%  Similarity=0.142  Sum_probs=85.1

Q ss_pred             hhhHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecc---c
Q psy4734         172 QPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDS---A  244 (367)
Q Consensus       172 q~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~---~  244 (367)
                      ...+.++......|++.|++|+||+++.+.+...    +...       .-.+..+|+.+++    -.++||.-..   .
T Consensus        12 ~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~----s~r~-------~~pfv~vnc~~~~~~~l~~~lfG~~~g~~~g   80 (329)
T TIGR02974        12 LEQVSRLAPLDRPVLIIGERGTGKELIAARLHYL----SKRW-------QGPLVKLNCAALSENLLDSELFGHEAGAFTG   80 (329)
T ss_pred             HHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHh----cCcc-------CCCeEEEeCCCCChHHHHHHHhccccccccC
Confidence            3446666677788999999999999997765532    2111       1134567877765    2456774210   0


Q ss_pred             ccccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-CC--
Q psy4734         245 SHEWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-LE--  319 (367)
Q Consensus       245 ~~~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-l~--  319 (367)
                      ...-..|.+.          ....--+++|  +.++..--..|-.+|++...-.+.+..  ..+.++|+|+-++- +.  
T Consensus        81 a~~~~~G~~~----------~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~--~~~~~~RiI~at~~~l~~~  148 (329)
T TIGR02974        81 AQKRHQGRFE----------RADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQ--TLQVDVRLVCATNADLPAL  148 (329)
T ss_pred             cccccCCchh----------hCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCc--eeccceEEEEechhhHHHH
Confidence            0011223221          1122347777  334555556666677665544443333  45567888887642 21  


Q ss_pred             ----ccCcchhhceee--EEecccC---CchHHHHHHHHHHh
Q psy4734         320 ----FASPATVSRVGM--IYFELKC---ISWTTFFLSYQNEL  352 (367)
Q Consensus       320 ----~asPatvsRcg~--v~~~~~~---~~~~~~~~swl~~~  352 (367)
                          ...+....|+..  |.+.|-.   =.-..++..++...
T Consensus       149 ~~~g~fr~dL~~rl~~~~i~lPpLReR~eDI~~L~~~fl~~~  190 (329)
T TIGR02974       149 AAEGRFRADLLDRLAFDVITLPPLRERQEDIMLLAEHFAIRM  190 (329)
T ss_pred             hhcCchHHHHHHHhcchhcCCCchhhhhhhHHHHHHHHHHHH
Confidence                223556667644  3343311   01345566666543

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

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=87.88  E-value=0.27  Score=44.12  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=19.1

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|+||||++++++..+
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          28 IYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            36678999999999999987543

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=87.88  E-value=0.27  Score=45.29  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++|+..+
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         30 TLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36688999999999999987543

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=87.85  E-value=0.36  Score=41.98  Aligned_cols=25  Identities=36%  Similarity=0.335  Sum_probs=21.1

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      -+.++|++||||||++..|...+..
T Consensus         3 vi~i~G~~gsGKTTli~~L~~~l~~   27 (159)
T cd03116           3 VIGFVGYSGSGKTTLLEKLIPALSA   27 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3668899999999999999887753

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

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

Probab=87.84  E-value=0.77  Score=45.45  Aligned_cols=26  Identities=19%  Similarity=0.388  Sum_probs=22.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIA  210 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~  210 (367)
                      +++.|++|+|||++.+-+.+.+..-.
T Consensus        45 ~~iyG~~GTGKT~~~~~v~~~l~~~~   70 (366)
T COG1474          45 IIIYGPTGTGKTATVKFVMEELEESS   70 (366)
T ss_pred             EEEECCCCCCHhHHHHHHHHHHHhhh
Confidence            78889999999999999888776543

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=87.82  E-value=0.28  Score=44.35  Aligned_cols=24  Identities=25%  Similarity=0.191  Sum_probs=20.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++|++|+||||++++|+..+
T Consensus        24 e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          24 EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             eeEEEECCCCCCHHHHHHHHhCCC
Confidence            456788999999999999987544

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=87.81  E-value=0.36  Score=47.17  Aligned_cols=26  Identities=35%  Similarity=0.294  Sum_probs=21.6

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .-++++|++|+||||++..|+..+..
T Consensus       141 ~vi~~~G~~GvGKTTtiakLA~~l~~  166 (336)
T PRK14974        141 VVIVFVGVNGTGKTTTIAKLAYYLKK  166 (336)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            34778899999999999998877643

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=87.80  E-value=0.29  Score=44.73  Aligned_cols=22  Identities=36%  Similarity=0.424  Sum_probs=18.7

Q ss_pred             eeccccCCCchhhHHHHHHHHH
Q psy4734         186 MVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       186 ~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.|++||||||+.+.|...++
T Consensus        12 gIaG~SgSGKTTva~~l~~~~~   33 (218)
T COG0572          12 GIAGGSGSGKTTVAKELSEQLG   33 (218)
T ss_pred             EEeCCCCCCHHHHHHHHHHHhC
Confidence            3569999999999999888775

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=87.73  E-value=0.35  Score=42.76  Aligned_cols=27  Identities=26%  Similarity=0.231  Sum_probs=23.1

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIA  210 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~  210 (367)
                      .+-|.|.+||||||+...|.+.|....
T Consensus        25 viW~TGLSGsGKSTiA~ale~~L~~~G   51 (197)
T COG0529          25 VIWFTGLSGSGKSTIANALEEKLFAKG   51 (197)
T ss_pred             EEEeecCCCCCHHHHHHHHHHHHHHcC
Confidence            466789999999999999999887654

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=87.72  E-value=0.28  Score=45.17  Aligned_cols=23  Identities=30%  Similarity=0.263  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++|+..+
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          30 LVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36688999999999999987644

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=87.69  E-value=4.9  Score=42.41  Aligned_cols=28  Identities=25%  Similarity=0.191  Sum_probs=21.3

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      ..-.++.|+||+||||++..+..++...
T Consensus       160 ~~~~vitGgpGTGKTt~v~~ll~~l~~~  187 (586)
T TIGR01447       160 SNFSLITGGPGTGKTTTVARLLLALVKQ  187 (586)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHHHHh
Confidence            4445667999999999988877766543

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.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=87.67  E-value=0.28  Score=44.69  Aligned_cols=22  Identities=32%  Similarity=0.350  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++|+..+
T Consensus        32 ~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          32 VAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             EEEECCCCCCHHHHHHHHhcCc
Confidence            6688999999999999988654

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=87.62  E-value=0.29  Score=44.98  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=19.1

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|+||||++++|+..+
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        29 FVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            36678999999999999987543

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=87.62  E-value=0.29  Score=45.45  Aligned_cols=22  Identities=27%  Similarity=0.237  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        35 ~~i~G~nGsGKSTLl~~l~Gl~   56 (253)
T PRK14242         35 TALIGPSGCGKSTFLRCLNRMN   56 (253)
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            6678999999999999988653

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=87.59  E-value=0.35  Score=47.98  Aligned_cols=26  Identities=27%  Similarity=0.180  Sum_probs=21.2

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ....+.|+||+|+||||++..|+..+
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34457789999999999998888765

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=87.57  E-value=0.31  Score=46.59  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+|||++...|++.+
T Consensus         2 i~i~G~t~~GKs~la~~l~~~~   23 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKKL   23 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            4678999999999988887765

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=87.56  E-value=0.29  Score=45.58  Aligned_cols=22  Identities=36%  Similarity=0.360  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        28 ~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          28 IGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6688999999999999987654

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=87.56  E-value=0.3  Score=43.73  Aligned_cols=23  Identities=30%  Similarity=0.248  Sum_probs=18.9

Q ss_pred             hhheeccccCCCchhhHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      .-+.++|++|+||||++++++..
T Consensus        28 e~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         28 GLLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            33668899999999999987754

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=87.56  E-value=0.3  Score=42.87  Aligned_cols=22  Identities=36%  Similarity=0.505  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++|+||||++++|+..+
T Consensus        31 ~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          31 IALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            6678999999999999987654

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.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=87.55  E-value=0.3  Score=44.58  Aligned_cols=24  Identities=33%  Similarity=0.364  Sum_probs=19.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++|++|+||||++++++..+
T Consensus        37 e~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         37 ETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            346678999999999999988654

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=87.54  E-value=0.3  Score=44.65  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++|+..+
T Consensus        36 ~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         36 KLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             EEEECCCCCCHHHHHHHHhccc
Confidence            6678999999999999987643

>KOG0738|consensus

Probab=87.53  E-value=0.29  Score=48.28  Aligned_cols=22  Identities=32%  Similarity=0.445  Sum_probs=18.6

Q ss_pred             hhhheeccccCCCchhhHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -.||+++||||+|||.+.+.++
T Consensus       245 WkgvLm~GPPGTGKTlLAKAvA  266 (491)
T KOG0738|consen  245 WKGVLMVGPPGTGKTLLAKAVA  266 (491)
T ss_pred             cceeeeeCCCCCcHHHHHHHHH
Confidence            3679999999999998877655

>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=87.53  E-value=0.31  Score=42.61  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++|+..+
T Consensus        31 ~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          31 LAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHhcc
Confidence            6678999999999999987654

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

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

Probab=87.51  E-value=0.33  Score=48.80  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=21.7

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++++||||+|||++.+.|++.+
T Consensus        51 ~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         51 KNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            568999999999999999998875

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=87.51  E-value=0.29  Score=45.72  Aligned_cols=22  Identities=41%  Similarity=0.443  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++|+..+
T Consensus        30 ~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         30 LVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999988544

>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A

Probab=87.50  E-value=0.39  Score=42.12  Aligned_cols=24  Identities=21%  Similarity=0.301  Sum_probs=20.3

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .+++||.|+||||++..+.-++..
T Consensus        22 ~vi~G~Ng~GKStil~ai~~~L~~   45 (202)
T PF13476_consen   22 NVIYGPNGSGKSTILEAIRYALGG   45 (202)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcC
Confidence            456799999999999999888754

>PRK10908 cell division protein FtsE; Provisional

Probab=87.48  E-value=0.3  Score=44.41  Aligned_cols=23  Identities=22%  Similarity=0.216  Sum_probs=19.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++|+..+
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         30 MAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36688999999999999987543

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=87.46  E-value=0.34  Score=49.59  Aligned_cols=24  Identities=29%  Similarity=0.256  Sum_probs=20.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.|+||+|+||||++..|+..+.
T Consensus       258 Vi~LvGpnGvGKTTTiaKLA~~~~  281 (484)
T PRK06995        258 VFALMGPTGVGKTTTTAKLAARCV  281 (484)
T ss_pred             EEEEECCCCccHHHHHHHHHHHHH
Confidence            367899999999999999997664

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=87.39  E-value=0.3  Score=43.05  Aligned_cols=23  Identities=17%  Similarity=0.030  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+.++|++|+||||++++|+..+
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          28 IVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36678999999999999987654

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=87.35  E-value=0.33  Score=43.49  Aligned_cols=81  Identities=12%  Similarity=0.260  Sum_probs=42.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc--cccccc-----------eeccccccccc
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT--MGQLYG-----------EFDSASHEWRD  250 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t--~~~l~G-----------~~d~~~~~W~d  250 (367)
                      -+++.|++|||||+++..+...+.  . .          .+..|||..+-  ..+.-+           ........|.+
T Consensus        17 ~~i~aG~~GsGKSt~~~~~~~~~~--~-~----------~~v~i~~D~~r~~~p~~~~~~~~~~~~~~~~~~~~a~~~~~   83 (199)
T PF06414_consen   17 LIIIAGQPGSGKSTLARQLLEEFG--G-G----------GIVVIDADEFRQFHPDYDELLKADPDEASELTQKEASRLAE   83 (199)
T ss_dssp             EEEEES-TTSTTHHHHHHHHHHT---T-T-----------SEEE-GGGGGGGSTTHHHHHHHHCCCTHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHhhhhcc--C-C----------CeEEEehHHHHHhccchhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            356679999999999988766543  1 1          12346666542  111111           11222234777


Q ss_pred             chHHHHHHHHhcCCCCCceEEEEcCCC-ChHhhhhh
Q psy4734         251 GILAKTFREMAVSTTPDRKWIMFDGPI-DAVWIENM  285 (367)
Q Consensus       251 Gil~~~~r~~~~~~~~~~~wivfDG~~-d~~wie~l  285 (367)
                      .++..++++.        .=|||||.. ++.++..+
T Consensus        84 ~~~~~a~~~~--------~nii~E~tl~~~~~~~~~  111 (199)
T PF06414_consen   84 KLIEYAIENR--------YNIIFEGTLSNPSKLRKL  111 (199)
T ss_dssp             HHHHHHHHCT----------EEEE--TTSSHHHHHH
T ss_pred             HHHHHHHHcC--------CCEEEecCCCChhHHHHH
Confidence            7777777544        457889887 45666643

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=87.29  E-value=0.33  Score=47.23  Aligned_cols=155  Identities=10%  Similarity=0.145  Sum_probs=82.1

Q ss_pred             hhhHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecccccc
Q psy4734         172 QPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDSASHE  247 (367)
Q Consensus       172 q~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~~~~~  247 (367)
                      ...+.++......|++.|++|+||+++.+.+...    ....       .-.+..+|+.+++    -.++||.-.   +.
T Consensus        19 ~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~----s~r~-------~~pfv~v~c~~~~~~~~~~~lfg~~~---~~   84 (326)
T PRK11608         19 LEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL----SSRW-------QGPFISLNCAALNENLLDSELFGHEA---GA   84 (326)
T ss_pred             HHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh----CCcc-------CCCeEEEeCCCCCHHHHHHHHccccc---cc
Confidence            3445666677788999999999999998776532    2111       1134567877775    345677421   11


Q ss_pred             cc------cchHHHHHHHHhcCCCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-C
Q psy4734         248 WR------DGILAKTFREMAVSTTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-L  318 (367)
Q Consensus       248 W~------dGil~~~~r~~~~~~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-l  318 (367)
                      +.      -|.+    .+      ...--+++|.  .++..--+.|-.++++.....+...  -..+.++|+|+-++. +
T Consensus        85 ~~g~~~~~~g~l----~~------a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~--~~~~~~~RiI~~s~~~l  152 (326)
T PRK11608         85 FTGAQKRHPGRF----ER------ADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGS--QPLQVNVRLVCATNADL  152 (326)
T ss_pred             cCCcccccCCch----hc------cCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCC--ceeeccEEEEEeCchhH
Confidence            11      1222    11      1123467772  3444444556666666554444332  345557888886533 2


Q ss_pred             ------CccCcchhhcee--eEEecccC---CchHHHHHHHHHHh
Q psy4734         319 ------EFASPATVSRVG--MIYFELKC---ISWTTFFLSYQNEL  352 (367)
Q Consensus       319 ------~~asPatvsRcg--~v~~~~~~---~~~~~~~~swl~~~  352 (367)
                            ....+....|.+  .|.+.|-.   =....++..++...
T Consensus       153 ~~l~~~g~f~~dL~~~l~~~~i~lPpLReR~eDI~~L~~~fl~~~  197 (326)
T PRK11608        153 PAMVAEGKFRADLLDRLAFDVVQLPPLRERQSDIMLMAEHFAIQM  197 (326)
T ss_pred             HHHHHcCCchHHHHHhcCCCEEECCChhhhhhhHHHHHHHHHHHH
Confidence                  123344555653  34454420   12455666666554

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=87.25  E-value=1.1  Score=41.07  Aligned_cols=43  Identities=21%  Similarity=0.148  Sum_probs=28.6

Q ss_pred             ccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccc
Q psy4734         188 VGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG  239 (367)
Q Consensus       188 ~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G  239 (367)
                      -+..|+||||+.-.|+.++...+         .+|.+...+|..-+...++|
T Consensus         7 ~~KGGvGKTt~a~~LA~~la~~g---------~~VlliD~D~~~~~~~~~~g   49 (251)
T TIGR01969         7 SGKGGTGKTTITANLGVALAKLG---------KKVLALDADITMANLELILG   49 (251)
T ss_pred             cCCCCCcHHHHHHHHHHHHHHCC---------CeEEEEeCCCCCccceeEeC
Confidence            36789999999999998887542         35666666764333333443

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=87.24  E-value=0.42  Score=38.50  Aligned_cols=24  Identities=21%  Similarity=0.105  Sum_probs=19.0

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+++.|++|+|||+++-.+...+.
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~   25 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELL   25 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHH
Confidence            467889999999998777665554

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=87.22  E-value=0.32  Score=44.65  Aligned_cols=22  Identities=23%  Similarity=0.320  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        14 ~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184        14 ISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999987654

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>smart00072 GuKc Guanylate kinase homologues

Probab=87.21  E-value=0.34  Score=42.84  Aligned_cols=22  Identities=27%  Similarity=0.265  Sum_probs=18.5

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      -++++||+|+||+|+.+.|.+.
T Consensus         4 ~ivl~Gpsg~GK~tl~~~L~~~   25 (184)
T smart00072        4 PIVLSGPSGVGKGTLLAELIQE   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            4678899999999998887654

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=87.18  E-value=0.32  Score=44.89  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=19.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++|+..+
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (242)
T cd03295          29 FLVLIGPSGSGKTTTMKMINRLI   51 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36678999999999999987543

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=87.16  E-value=0.31  Score=44.96  Aligned_cols=22  Identities=27%  Similarity=0.372  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        32 ~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         32 YTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6688999999999999988654

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=87.15  E-value=0.33  Score=42.31  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=19.7

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++||+|+||||++++++..+
T Consensus        29 ~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          29 EKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            336678999999999999987654

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.

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=87.13  E-value=0.32  Score=45.19  Aligned_cols=23  Identities=48%  Similarity=0.475  Sum_probs=19.4

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|+||||++++|+..+
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~   53 (253)
T TIGR02323        31 VLGIVGESGSGKSTLLGCLAGRL   53 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36678999999999999988654

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=87.08  E-value=0.32  Score=45.07  Aligned_cols=22  Identities=32%  Similarity=0.282  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||++++++..+
T Consensus        32 ~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14240         32 TALIGPSGCGKSTFLRTLNRMN   53 (250)
T ss_pred             EEEECCCCCCHHHHHHHHhccc
Confidence            6688999999999999988643

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

Probab=87.08  E-value=0.35  Score=45.89  Aligned_cols=114  Identities=18%  Similarity=0.255  Sum_probs=59.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcCC
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVST  264 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~~  264 (367)
                      ++|.||||-||||+.++++..++.              .+....-.++.               +.|=+..++...    
T Consensus        55 vLl~GPPGlGKTTLA~IIA~Emgv--------------n~k~tsGp~le---------------K~gDlaaiLt~L----  101 (332)
T COG2255          55 VLLFGPPGLGKTTLAHIIANELGV--------------NLKITSGPALE---------------KPGDLAAILTNL----  101 (332)
T ss_pred             EEeeCCCCCcHHHHHHHHHHHhcC--------------CeEeccccccc---------------ChhhHHHHHhcC----
Confidence            678899999999999998876632              22211111111               011122222111    


Q ss_pred             CCCceEEEEc--CCCChHhhhhhhhccCCCCce-eeccc---c--eeecCCCCeEEEecCCCCccCcchhhceeeEE
Q psy4734         265 TPDRKWIMFD--GPIDAVWIENMNTVLDDNKKL-CLING---E--IIKMSNTMNLIFECENLEFASPATVSRVGMIY  333 (367)
Q Consensus       265 ~~~~~wivfD--G~~d~~wie~lnsvlddn~~l-~L~~g---e--~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~  333 (367)
                       ....-+..|  =.+.+.--|-|=++|+|=+.- .+..|   -  ++.+| ++.+|=-|+-.--.|-..-.|.|++.
T Consensus       102 -e~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLp-pFTLIGATTr~G~lt~PLrdRFGi~~  176 (332)
T COG2255         102 -EEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLP-PFTLIGATTRAGMLTNPLRDRFGIIQ  176 (332)
T ss_pred             -CcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCC-CeeEeeeccccccccchhHHhcCCee
Confidence             223444445  123455556666667663322 22222   2  23333 56667666666666666777777763

>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=87.06  E-value=0.3  Score=45.28  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=20.4

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.++|++||||||+.++|+..+.
T Consensus        32 ~~~i~G~nGsGKSTL~~~l~GLl~   55 (235)
T COG1122          32 RVLLIGPNGSGKSTLLKLLNGLLK   55 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHcCcCc
Confidence            477889999999999999886653

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=87.06  E-value=0.33  Score=44.32  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=19.5

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++|+..+
T Consensus        35 ~~~l~G~nGsGKSTLlk~l~G~~   57 (226)
T cd03234          35 VMAILGSSGSGKTTLLDAISGRV   57 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            36688999999999999988654

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=87.06  E-value=0.32  Score=43.62  Aligned_cols=22  Identities=27%  Similarity=0.320  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||+.++++..+
T Consensus        30 ~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         30 VQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999987654

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=87.04  E-value=0.32  Score=45.05  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        32 ~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         32 TALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            6678999999999999988654

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=87.03  E-value=0.33  Score=43.71  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        31 ~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         31 LVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999987643

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=87.02  E-value=0.33  Score=43.29  Aligned_cols=23  Identities=43%  Similarity=0.394  Sum_probs=19.1

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++++..+
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        28 ALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36688999999999999987643

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=87.01  E-value=0.33  Score=43.71  Aligned_cols=22  Identities=32%  Similarity=0.300  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++++..+
T Consensus        27 ~~l~G~nGsGKSTLl~~l~gl~   48 (211)
T cd03298          27 TAIVGPSGSGKSTLLNLIAGFE   48 (211)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999987544

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=86.99  E-value=0.33  Score=45.55  Aligned_cols=23  Identities=39%  Similarity=0.278  Sum_probs=19.4

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++|+..+
T Consensus        40 ~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         40 FVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36688999999999999988644

>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=86.95  E-value=0.32  Score=41.32  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=18.7

Q ss_pred             hhheeccccCCCchhhHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      .-+.++|++|+||||++++++..
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCC
Confidence            33667899999999999987654

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.

>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=86.95  E-value=0.34  Score=42.12  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=19.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|+||||+.++++..+
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          29 RLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36678999999999999987644

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

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=86.94  E-value=0.32  Score=47.84  Aligned_cols=23  Identities=30%  Similarity=0.223  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+-++||+||||||++++++...
T Consensus        32 ~~~l~GpsGsGKSTLLr~iaGl~   54 (353)
T TIGR03265        32 FVCLLGPSGCGKTTLLRIIAGLE   54 (353)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            36678999999999999988644

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=86.93  E-value=0.33  Score=43.96  Aligned_cols=24  Identities=42%  Similarity=0.537  Sum_probs=19.7

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++|++|+||||+.++++..+
T Consensus        38 e~~~i~G~nGsGKSTLl~~i~G~~   61 (214)
T PRK13543         38 EALLVQGDNGAGKTTLLRVLAGLL   61 (214)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCC
Confidence            346688999999999999987544

>KOG0731|consensus

Probab=86.90  E-value=0.32  Score=52.02  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=19.9

Q ss_pred             hhhhheeccccCCCchhhHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ..+|++++||||+|||.+.++.|
T Consensus       343 iPkGvLL~GPPGTGKTLLAKAiA  365 (774)
T KOG0731|consen  343 IPKGVLLVGPPGTGKTLLAKAIA  365 (774)
T ss_pred             CcCceEEECCCCCcHHHHHHHHh
Confidence            56899999999999999877654

>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=86.90  E-value=0.34  Score=42.59  Aligned_cols=22  Identities=32%  Similarity=0.335  Sum_probs=18.5

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      -+.++|++|+||||++++++..
T Consensus        27 ~~~l~G~nGsGKStLl~~i~G~   48 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGL   48 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3667899999999999987754

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.

>PLN02459 probable adenylate kinase

Probab=86.89  E-value=0.35  Score=45.51  Aligned_cols=22  Identities=27%  Similarity=0.193  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||..+.|++.+
T Consensus        32 ii~~G~PGsGK~T~a~~la~~~   53 (261)
T PLN02459         32 WVFLGCPGVGKGTYASRLSKLL   53 (261)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6678999999999999888765

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=86.89  E-value=0.34  Score=43.91  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++++...
T Consensus        33 ~~i~G~nGsGKSTLl~~i~G~~   54 (220)
T cd03245          33 VAIIGRVGSGKSTLLKLLAGLY   54 (220)
T ss_pred             EEEECCCCCCHHHHHHHHhcCc
Confidence            6678999999999999987543

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=86.89  E-value=0.34  Score=44.88  Aligned_cols=22  Identities=27%  Similarity=0.289  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        32 ~~i~G~nGsGKSTLl~~l~G~~   53 (250)
T PRK11264         32 VAIIGPSGSGKTTLLRCINLLE   53 (250)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6688999999999999987644

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=86.87  E-value=0.33  Score=45.23  Aligned_cols=22  Identities=32%  Similarity=0.309  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++|++||||||++++|+..+
T Consensus        33 ~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         33 TAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            6678999999999999988754

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=86.85  E-value=1  Score=39.49  Aligned_cols=43  Identities=28%  Similarity=0.314  Sum_probs=31.5

Q ss_pred             ccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccc
Q psy4734         188 VGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG  239 (367)
Q Consensus       188 ~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G  239 (367)
                      -+..|+||||+...|+.++...         +.+|-....+|.+-...-+++
T Consensus         5 ~~kGG~GKTt~a~~la~~la~~---------g~~VlliD~D~~~~~~~~~~~   47 (195)
T PF01656_consen    5 SGKGGVGKTTIAANLAQALARK---------GKKVLLIDLDPQAPNLSILFG   47 (195)
T ss_dssp             ESSTTSSHHHHHHHHHHHHHHT---------TS-EEEEEESTTSHHHHHHTT
T ss_pred             cCCCCccHHHHHHHHHhccccc---------cccccccccCcccccHHHHhc
Confidence            3668999999999999998763         346888888888765444443

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>PRK09087 hypothetical protein; Validated

Probab=86.81  E-value=0.38  Score=44.30  Aligned_cols=21  Identities=19%  Similarity=0.191  Sum_probs=17.8

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      .+.+.||+|+|||++.+.+++
T Consensus        46 ~l~l~G~~GsGKThLl~~~~~   66 (226)
T PRK09087         46 VVVLAGPVGSGKTHLASIWRE   66 (226)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999886554

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=86.81  E-value=0.33  Score=47.74  Aligned_cols=23  Identities=30%  Similarity=0.247  Sum_probs=19.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+-++||+||||||++++++...
T Consensus        34 ~~~llGpsGsGKSTLLr~IaGl~   56 (351)
T PRK11432         34 MVTLLGPSGCGKTTVLRLVAGLE   56 (351)
T ss_pred             EEEEECCCCCcHHHHHHHHHCCC
Confidence            36678999999999999987544

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=86.80  E-value=0.41  Score=42.41  Aligned_cols=22  Identities=36%  Similarity=0.480  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|+.||||||+++.|++.+
T Consensus         2 I~ieG~~GsGKSTl~~~L~~~~   23 (193)
T cd01673           2 IVVEGNIGAGKSTLAKELAEHL   23 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4567999999999999988764

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=86.78  E-value=0.88  Score=38.92  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++|+||||+...++..+..
T Consensus         2 i~~~G~~GsGKTt~~~~l~~~~~~   25 (148)
T cd03114           2 IGITGVPGAGKSTLIDALITALRA   25 (148)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHH
Confidence            457799999999999999877743

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>cd01385 MYSc_type_IX Myosin motor domain, type IX myosins

Probab=86.77  E-value=0.85  Score=48.98  Aligned_cols=56  Identities=25%  Similarity=0.398  Sum_probs=39.9

Q ss_pred             hHHHHHHHHhcCCcccchhhHHHHHh----------hhhhheeccccCCCchhhHHHHHHHHHHHH
Q psy4734         155 NDELLEILSETKDPLRVQPHLKKIFE----------VRHGLMVVGESFGGKTTAYQTLADSLTDIA  210 (367)
Q Consensus       155 ~~~Ll~ils~~~~~~~lq~~l~k~~~----------~~~~v~~~g~~gsGKTt~~~~L~~al~~~~  210 (367)
                      +++.............+-||++.+-+          ...++++.|++|+|||+..+.+...+..++
T Consensus        57 ~~~~~~~Y~~~~~~~~lpPHiy~iA~~Ay~~m~~~~~~QsIiisGESGAGKTet~K~il~yL~~~s  122 (692)
T cd01385          57 NPKYVRLYENQQRLGKLPPHIFAIADVAYYNMLRKKVNQCIVISGESGSGKTESTNFLIHHLTALS  122 (692)
T ss_pred             CHHHHHHHhcCCCcCCCCCCHHHHHHHHHHHHHhcCCCceEEEecCCCCCchHHHHHHHHHHHHhc
Confidence            45666666555445667788776532          235688889999999999999888776654

Myosin IX is a processive single-headed motor, which might play a role in signalling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the hea

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=86.74  E-value=0.42  Score=42.89  Aligned_cols=58  Identities=10%  Similarity=0.130  Sum_probs=35.4

Q ss_pred             CCceEEEEcCC---CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         266 PDRKWIMFDGP---IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       266 ~~~~wivfDG~---~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                      .+++.+++|=|   +|+...+.+-.++.+-+             .+..+|+=++++..+  ....|+..+|...+.
T Consensus       134 ~~~~illlDEP~~~LD~~~~~~l~~~l~~~~-------------~~~tiIiitH~~~~~--~~~d~v~~~~~~~~~  194 (197)
T cd03278         134 RPSPFCVLDEVDAALDDANVERFARLLKEFS-------------KETQFIVITHRKGTM--EAADRLYGVTMQESG  194 (197)
T ss_pred             CCCCEEEEeCCcccCCHHHHHHHHHHHHHhc-------------cCCEEEEEECCHHHH--hhcceEEEEEeccCC
Confidence            34589999966   57777777766654321             123456656665544  246677777776544

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=86.72  E-value=0.35  Score=44.57  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        32 ~~l~G~nGsGKSTLl~~l~G~~   53 (241)
T PRK10895         32 VGLLGPNGAGKTTTFYMVVGIV   53 (241)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999988654

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=86.71  E-value=0.34  Score=47.79  Aligned_cols=22  Identities=32%  Similarity=0.359  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++...
T Consensus        33 ~~llG~sGsGKSTLLr~iaGl~   54 (356)
T PRK11650         33 IVLVGPSGCGKSTLLRMVAGLE   54 (356)
T ss_pred             EEEECCCCCcHHHHHHHHHCCC
Confidence            5678999999999999987644

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=86.71  E-value=0.49  Score=41.29  Aligned_cols=27  Identities=26%  Similarity=0.340  Sum_probs=21.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      .-+.+.|+||+||||+..-+++.|...
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~   32 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREK   32 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhc
Confidence            346778999999999998888777544

>TIGR00750 lao LAO/AO transport system ATPase

Probab=86.71  E-value=0.77  Score=44.04  Aligned_cols=28  Identities=25%  Similarity=0.310  Sum_probs=22.6

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ....+.++|++|+||||+...+...+..
T Consensus        33 ~~~~i~i~G~~G~GKttl~~~l~~~~~~   60 (300)
T TIGR00750        33 NAHRVGITGTPGAGKSTLLEALGMELRR   60 (300)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3455778899999999999998887653

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=86.70  E-value=0.69  Score=49.93  Aligned_cols=26  Identities=19%  Similarity=0.305  Sum_probs=21.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      -.++.|+||+||||+++.+.+++...
T Consensus       340 ~~iitGgpGTGKTt~l~~i~~~~~~~  365 (720)
T TIGR01448       340 VVILTGGPGTGKTTITRAIIELAEEL  365 (720)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            35566999999999999988877654

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=86.67  E-value=0.36  Score=40.78  Aligned_cols=19  Identities=21%  Similarity=0.482  Sum_probs=16.4

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+||||+++.+.
T Consensus         3 v~v~G~~~~GKTtli~~l~   21 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFT   21 (164)
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            5788999999999988764

Rab GTPases are implicated in vesicle trafficking.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=86.64  E-value=0.35  Score=44.23  Aligned_cols=52  Identities=12%  Similarity=0.188  Sum_probs=33.0

Q ss_pred             CCceEEEEcCC---CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeE
Q psy4734         266 PDRKWIMFDGP---IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMI  332 (367)
Q Consensus       266 ~~~~wivfDG~---~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v  332 (367)
                      ..++.+++|=|   +|+.-.+.+..++..             +.....+|+-++++..+ +. ..|+.++
T Consensus       155 ~~p~lllLDEP~~~LD~~~~~~l~~~l~~-------------~~~~~tii~~sh~~~~~-~~-~d~v~~l  209 (234)
T cd03251         155 KDPPILILDEATSALDTESERLVQAALER-------------LMKNRTTFVIAHRLSTI-EN-ADRIVVL  209 (234)
T ss_pred             cCCCEEEEeCccccCCHHHHHHHHHHHHH-------------hcCCCEEEEEecCHHHH-hh-CCEEEEe
Confidence            46789999966   477777766665521             11234678888887766 33 5666444

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.

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=86.63  E-value=0.35  Score=43.78  Aligned_cols=22  Identities=23%  Similarity=0.379  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        30 ~~i~G~nGsGKSTLl~~i~G~~   51 (218)
T cd03290          30 TMIVGQVGCGKSSLLLAILGEM   51 (218)
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            6678999999999999988654

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

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

Probab=86.61  E-value=0.37  Score=42.61  Aligned_cols=87  Identities=20%  Similarity=0.308  Sum_probs=49.5

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      +...++++.|++|+|||.+...++..+-..         +.+|.+.       +..+|+..+..   .+.+|-....++.
T Consensus        45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~---------g~~v~f~-------~~~~L~~~l~~---~~~~~~~~~~~~~  105 (178)
T PF01695_consen   45 ENGENLILYGPPGTGKTHLAVAIANEAIRK---------GYSVLFI-------TASDLLDELKQ---SRSDGSYEELLKR  105 (178)
T ss_dssp             SC--EEEEEESTTSSHHHHHHHHHHHHHHT---------T--EEEE-------EHHHHHHHHHC---CHCCTTHCHHHHH
T ss_pred             ccCeEEEEEhhHhHHHHHHHHHHHHHhccC---------CcceeEe-------ecCceeccccc---cccccchhhhcCc
Confidence            456789999999999999988877654331         2234332       44566655532   2455655566666


Q ss_pred             HhcCCCCCceEEEEc--C--CCChHhhhhhhhccC
Q psy4734         260 MAVSTTPDRKWIMFD--G--PIDAVWIENMNTVLD  290 (367)
Q Consensus       260 ~~~~~~~~~~wivfD--G--~~d~~wie~lnsvld  290 (367)
                      ...     ..-+|+|  |  +.+....+-|-.++|
T Consensus       106 l~~-----~dlLilDDlG~~~~~~~~~~~l~~ii~  135 (178)
T PF01695_consen  106 LKR-----VDLLILDDLGYEPLSEWEAELLFEIID  135 (178)
T ss_dssp             HHT-----SSCEEEETCTSS---HHHHHCTHHHHH
T ss_pred             ccc-----ccEecccccceeeecccccccchhhhh
Confidence            633     3778888  2  234444455545543

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.

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=86.60  E-value=0.32  Score=43.73  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=19.6

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+-++|++|+||||++++|+..+
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          35 MVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             EEEEECCCCCCHHHHHHHhcccC
Confidence            46678999999999999988654

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=86.59  E-value=0.35  Score=44.88  Aligned_cols=22  Identities=32%  Similarity=0.391  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        33 ~~l~G~nGsGKSTLl~~l~G~~   54 (253)
T PRK14267         33 FALMGPSGCGKSTLLRTFNRLL   54 (253)
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            5678999999999999988654

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=86.57  E-value=0.35  Score=44.33  Aligned_cols=23  Identities=30%  Similarity=0.394  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++||||||++++|+..+
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (232)
T PRK10771         27 RVAILGPSGAGKSTLLNLIAGFL   49 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36678999999999999987654

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=86.56  E-value=0.35  Score=45.17  Aligned_cols=22  Identities=27%  Similarity=0.288  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        42 ~~i~G~nGsGKSTLl~~l~Gl~   63 (260)
T PRK10744         42 TAFIGPSGCGKSTLLRTFNRMY   63 (260)
T ss_pred             EEEECCCCCCHHHHHHHHhccc
Confidence            6678999999999999998654

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=86.55  E-value=0.36  Score=45.72  Aligned_cols=33  Identities=24%  Similarity=0.300  Sum_probs=25.0

Q ss_pred             HHHHHhhh--hhheeccccCCCchhhHHHHHHHHH
Q psy4734         175 LKKIFEVR--HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       175 l~k~~~~~--~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +..+....  ..+.+.||+|+||||+.+.++..+.
T Consensus       102 l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       102 LPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             HHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            44454433  4678899999999999999887664

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.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=86.51  E-value=0.38  Score=44.88  Aligned_cols=22  Identities=32%  Similarity=0.323  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        41 ~~l~G~nGsGKSTLl~~l~G~~   62 (259)
T PRK14274         41 TAIIGPSGCGKSTFIKTLNLMI   62 (259)
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            6678999999999999998655

>PLN02748 tRNA dimethylallyltransferase

Probab=86.51  E-value=0.6  Score=47.63  Aligned_cols=71  Identities=14%  Similarity=0.193  Sum_probs=41.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEE--EeCCCCCc-------cccccceecccccccccchHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYK--IINPKSIT-------MGQLYGEFDSASHEWRDGILAK  255 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~--~inpka~t-------~~~l~G~~d~~~~~W~dGil~~  255 (367)
                      +.++||+|+|||++...|+..++-  .  ..+.+..+| |.  .|-....|       ..+|+|.++|. .+|+=|-|.+
T Consensus        25 i~i~GptgsGKs~la~~la~~~~~--e--ii~~DsmQV-YrgLdIgTaKpt~eE~~~VpHHLid~v~p~-e~ysv~~F~~   98 (468)
T PLN02748         25 VVVMGPTGSGKSKLAVDLASHFPV--E--IINADSMQV-YSGLDVLTNKVPLHEQKGVPHHLLGVISPS-VEFTAKDFRD   98 (468)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCe--e--EEcCchhee-eCCcchhcCCCCHHHHcCCCCeeEeecCCC-CcCcHHHHHH
Confidence            667899999999999888877631  0  000111111 11  11111122       45788888885 6788777776


Q ss_pred             HHHHHh
Q psy4734         256 TFREMA  261 (367)
Q Consensus       256 ~~r~~~  261 (367)
                      ..+++.
T Consensus        99 ~A~~~I  104 (468)
T PLN02748         99 HAVPLI  104 (468)
T ss_pred             HHHHHH
Confidence            555554

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=86.49  E-value=0.36  Score=43.87  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        37 ~~l~G~nGsGKSTLl~~i~G~~   58 (224)
T TIGR02324        37 VALSGPSGAGKSTLLKSLYANY   58 (224)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6678999999999999987644

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=86.42  E-value=0.4  Score=40.70  Aligned_cols=19  Identities=26%  Similarity=0.326  Sum_probs=16.4

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         3 i~v~G~~~~GKTsli~~~~   21 (164)
T smart00173        3 LVVLGSGGVGKSALTIQFV   21 (164)
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6788999999999988764

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=86.40  E-value=0.36  Score=44.21  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.||+|+||||++++++..+.
T Consensus        15 ~~i~G~nGsGKSTLl~~l~Gl~~   37 (230)
T TIGR02770        15 LALVGESGSGKSLTCLAILGLLP   37 (230)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            56789999999999999886553

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=86.39  E-value=0.36  Score=44.26  Aligned_cols=22  Identities=27%  Similarity=0.298  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        31 ~~i~G~nGsGKSTLl~~l~Gl~   52 (237)
T cd03252          31 VGIVGRSGSGKSTLTKLIQRFY   52 (237)
T ss_pred             EEEECCCCCCHHHHHHHHhcCc
Confidence            6788999999999999988654

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=86.36  E-value=0.37  Score=44.78  Aligned_cols=23  Identities=30%  Similarity=0.205  Sum_probs=19.6

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|+||||++++++..+
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~Gl~   57 (254)
T PRK14273         35 ITALIGPSGCGKSTFLRTLNRMN   57 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            36678999999999999988654

>COG3950 Predicted ATP-binding protein involved in virulence [General function prediction only]

Probab=86.35  E-value=0.36  Score=46.95  Aligned_cols=33  Identities=24%  Similarity=0.406  Sum_probs=27.0

Q ss_pred             HhhhhhheeccccCCCchhhHHHHHHHHHHHHh
Q psy4734         179 FEVRHGLMVVGESFGGKTTAYQTLADSLTDIAA  211 (367)
Q Consensus       179 ~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~  211 (367)
                      +......+++||.|+||||++.+...+|+....
T Consensus        21 f~e~~ttIivgpNGsGKTtvLdair~aL~~fid   53 (440)
T COG3950          21 FGESETTIIVGPNGSGKTTVLDAIRNALNKFID   53 (440)
T ss_pred             cCCCceEEEECCCCCChhhHHHHHHHHHHhhcc
Confidence            334446788999999999999999999987654

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=86.33  E-value=0.37  Score=45.37  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=19.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++||+|+||||++++|+..+
T Consensus        51 e~~~l~G~nGsGKSTLl~~L~Gl~   74 (269)
T cd03294          51 EIFVIMGLSGSGKSTLLRCINRLI   74 (269)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            336688999999999999987654

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=86.32  E-value=0.37  Score=45.31  Aligned_cols=23  Identities=22%  Similarity=0.167  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++++..+
T Consensus        37 ~~~I~G~nGsGKSTLl~~i~Gl~   59 (269)
T PRK13648         37 WTSIVGHNGSGKSTIAKLMIGIE   59 (269)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            35678999999999999987654

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=86.28  E-value=0.37  Score=44.74  Aligned_cols=23  Identities=26%  Similarity=0.302  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++|+||||++++|+..+
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (252)
T TIGR03005        28 KVALIGPSGSGKSTILRILMTLE   50 (252)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36678999999999999987644

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>PLN02165 adenylate isopentenyltransferase

Probab=86.26  E-value=0.33  Score=47.26  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=19.9

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++||+|||||++...|+..++
T Consensus        46 ivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         46 VVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             EEEECCCCCcHHHHHHHHHHHcC
Confidence            66789999999999999888764

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=86.25  E-value=0.36  Score=47.91  Aligned_cols=22  Identities=36%  Similarity=0.348  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.||+||||||++++++..+
T Consensus        43 ~~LlGpsGsGKSTLLr~IaGl~   64 (375)
T PRK09452         43 LTLLGPSGCGKTTVLRLIAGFE   64 (375)
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5678999999999999988644

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=86.25  E-value=0.37  Score=45.86  Aligned_cols=22  Identities=27%  Similarity=0.312  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||++++++..+
T Consensus        40 ~~l~G~nGsGKSTLl~~l~Gl~   61 (289)
T PRK13645         40 TCVIGTTGSGKSTMIQLTNGLI   61 (289)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6678999999999999988654

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=86.24  E-value=0.38  Score=44.59  Aligned_cols=22  Identities=27%  Similarity=0.300  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++++..+
T Consensus        32 ~~i~G~nGsGKSTLl~~i~Gl~   53 (250)
T PRK14262         32 TAIIGPSGCGKTTLLRSINRMN   53 (250)
T ss_pred             EEEECCCCCCHHHHHHHHhccc
Confidence            6688999999999999988644

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=86.23  E-value=0.37  Score=45.37  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||++++|+..+
T Consensus        38 ~~l~G~nGsGKSTLl~~l~Gl~   59 (271)
T PRK13632         38 VAILGHNGSGKSTISKILTGLL   59 (271)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6678999999999999988654

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=86.22  E-value=0.48  Score=41.74  Aligned_cols=24  Identities=29%  Similarity=0.309  Sum_probs=20.1

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.+.|++|+||||+.+.|...+.
T Consensus        20 ~i~i~G~~GsGKstla~~l~~~l~   43 (184)
T TIGR00455        20 VIWLTGLSGSGKSTIANALEKKLE   43 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            356779999999999999887764

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=86.22  E-value=0.38  Score=44.52  Aligned_cols=22  Identities=27%  Similarity=0.283  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++|+||||++++|+..+
T Consensus        30 ~~i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        30 TALIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            6688999999999999988654

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	367
3vkg_A	3245	X-Ray Structure Of An Mtbd Truncation Mutant Of Dyn		1e-32
3vkh_A	3367	X-Ray Structure Of A Functional Full-Length Dynein		1e-32
3qmz_A	2486	Crystal Structure Of The Cytoplasmic Dynein Heavy C		1e-21
4ai6_A	2695	Dynein Motor Domain - Adp Complex Length = 2695		1e-21

>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor Domain Length = 3245

Iteration: 1
 Score =  137 bits (344), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 65/182 (35%), Positives = 109/182 (59%), Gaps = 11/182 (6%)
Query: 174  HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT 233
             L +I  + HG+M+VG S GGKTT+++   +++  +   KS           +++PK+IT
Sbjct: 898  QLHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEA--------HVMDPKAIT 949
Query: 234  MGQLYGEFDSASHEWRDGILAKTFREM---AVSTTPDRKWIMFDGPIDAVWIENMNTVLD 290
              QL+G  D  + EW DG+   T R +       +  R WI+FDG +D  W+EN+N++LD
Sbjct: 950  KDQLFGSLDLTTREWTDGLFTATLRRIIDNVRGESTKRHWIIFDGDVDPEWVENLNSLLD 1009
Query: 291  DNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQN 350
            DNK L L NGE + + N + ++FE ++L++A+ AT+SR GM++F  + ++    F +Y +
Sbjct: 1010 DNKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGMVWFSEEILTTQMIFQNYLD 1069
Query: 351  EL 352
             L
Sbjct: 1070 TL 1071

>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor Domain Length = 3367

Iteration: 1
 Score =  137 bits (344), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 65/182 (35%), Positives = 109/182 (59%), Gaps = 11/182 (6%)
Query: 174  HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT 233
             L +I  + HG+M+VG S GGKTT+++   +++  +   KS           +++PK+IT
Sbjct: 898  QLHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEA--------HVMDPKAIT 949
Query: 234  MGQLYGEFDSASHEWRDGILAKTFREM---AVSTTPDRKWIMFDGPIDAVWIENMNTVLD 290
              QL+G  D  + EW DG+   T R +       +  R WI+FDG +D  W+EN+N++LD
Sbjct: 950  KDQLFGSLDLTTREWTDGLFTATLRRIIDNVRGESTKRHWIIFDGDVDPEWVENLNSLLD 1009
Query: 291  DNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQN 350
            DNK L L NGE + + N + ++FE ++L++A+ AT+SR GM++F  + ++    F +Y +
Sbjct: 1010 DNKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGMVWFSEEILTTQMIFQNYLD 1069
Query: 351  EL 352
             L
Sbjct: 1070 TL 1071

>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain Motor Domain Length = 2486

Iteration: 1
 Score =  100 bits (250), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 90/168 (53%), Gaps = 12/168 (7%)
Query: 180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG 239
           + +  L++VG++  GKT  ++T+ D++       +           +I+ K +T   LYG
Sbjct: 702 KTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVY--------VIDTKVLTKESLYG 753
Query: 240 EFDSASHEWRDGILAKTFREMAVSTTP----DRKWIMFDGPIDAVWIENMNTVLDDNKKL 295
               A+ EWRDG+     R +    T      R W++FD  +D  ++E MN+VLDDNK L
Sbjct: 754 SMLKATLEWRDGLFTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVEAMNSVLDDNKIL 813
Query: 296 CLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTT 343
            L NGE + +     ++FE +NL+  +PAT++R G+++F     S ++
Sbjct: 814 TLPNGERLPIPPNFRILFETDNLDHTTPATITRCGLLWFSTDVCSISS 861

>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex Length = 2695

Iteration: 1
 Score =  100 bits (250), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 90/168 (53%), Gaps = 12/168 (7%)
Query: 180  EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG 239
            + +  L++VG++  GKT  ++T+ D++       +           +I+ K +T   LYG
Sbjct: 921  KTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVY--------VIDTKVLTKESLYG 972
Query: 240  EFDSASHEWRDGILAKTFREMAVSTTP----DRKWIMFDGPIDAVWIENMNTVLDDNKKL 295
                A+ EWRDG+     R +    T      R W++FD  +D  ++E MN+VLDDNK L
Sbjct: 973  SMLKATLEWRDGLFTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVEAMNSVLDDNKIL 1032
Query: 296  CLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTT 343
             L NGE + +     ++FE +NL+  +PAT++R G+++F     S ++
Sbjct: 1033 TLPNGERLPIPPNFRILFETDNLDHTTPATITRCGLLWFSTDVCSISS 1080

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	367
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	4e-82
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	2e-62
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	6e-64
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	6e-61
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-09

>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 Length = 2695

 Score =  271 bits (695), Expect = 4e-82
 Identities = 59/222 (26%), Positives = 104/222 (46%), Gaps = 21/222 (9%)

Query: 155  NDELLEILSETKDPLRVQPH---LKKI------FEVRHGLMVVGESFGGKTTAYQTLADS 205
            +  +++ L +             LKK        + +  L++VG++  GKT  ++T+ D+
Sbjct: 887  SKAIVQCLKDAGQRSGFSMSEEFLKKCMQFYYMQKTQQALILVGKAGCGKTATWKTVIDA 946

Query: 206  LTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVSTT 265
            +                   +I+ K +T   LYG    A+ EWRDG+     R +    T
Sbjct: 947  MAI--------FDGHANVVYVIDTKVLTKESLYGSMLKATLEWRDGLFTSILRRVNDDIT 998

Query: 266  ----PDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFA 321
                  R W++FD  +D  ++E MN+VLDDNK L L NGE + +     ++FE +NL+  
Sbjct: 999  GTFKNSRIWVVFDSDLDPEYVEAMNSVLDDNKILTLPNGERLPIPPNFRILFETDNLDHT 1058

Query: 322  SPATVSRVGMIYFELKCISWTTFFLSYQNELKEKLNEEQFEM 363
            +PAT++R G+++F     S ++      N+  E L+ +    
Sbjct: 1059 TPATITRCGLLWFSTDVCSISSKIDHLLNKSYEALDNKLSMF 1100

>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 Length = 2695

 Score =  215 bits (550), Expect = 2e-62
 Identities = 37/131 (28%), Positives = 68/131 (51%), Gaps = 1/131 (0%)

Query: 1   MQDILDIWLQVQGTWMYLEPIF-SSEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHIL 59
           + +I   W++VQ  W+ L  I   + DI   +P E+  FK++   +K I     +    +
Sbjct: 294 LSEIQVNWVEVQFYWLDLYGILGENLDIQNFLPLETSKFKSLTSEYKMITTRAFQLDTTI 353

Query: 60  QATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLR 119
           +   + +           L++I+  L+ +LE++R  FPRF+FL ND+LL+I+   K   +
Sbjct: 354 EVIHIPNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHDQ 413

Query: 120 VQPHLKKIFEA 130
           V   +KK+F +
Sbjct: 414 VSKFMKKMFGS 424

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score =  219 bits (560), Expect = 6e-64
 Identities = 48/131 (36%), Positives = 85/131 (64%), Gaps = 1/131 (0%)

Query: 1   MQDILDIWLQVQGTWMYLEPIFS-SEDIMRQMPEESRNFKTVDQIWKTIMLFVNKDPHIL 59
           ++ +LD+W+ VQ  W+YLE IFS S DI + +P ES  FK+++  +  I+  V+  P IL
Sbjct: 235 VRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSINSEFIAILKKVSGAPLIL 294

Query: 60  QATEMEDMLKNFNKCNLMLELIQKGLNDYLEKKRLFFPRFFFLSNDELLEILSETKDPLR 119
           +   +E + +   + + +L  +QK L +YLE++R  F RF+F+ +++LLEI+  +KD ++
Sbjct: 295 EVLAIERIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSKDIIK 354

Query: 120 VQPHLKKIFEA 130
           +Q H +K+F  
Sbjct: 355 IQKHFRKMFAG 365

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score =  210 bits (537), Expect = 6e-61
 Identities = 65/189 (34%), Positives = 113/189 (59%), Gaps = 11/189 (5%)

Query: 175  LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITM 234
            L +I  + HG+M+VG S GGKTT+++   +++          +   K+   +++PK+IT 
Sbjct: 899  LHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQ--------VDNIKSEAHVMDPKAITK 950

Query: 235  GQLYGEFDSASHEWRDGILAKTFREMAVST---TPDRKWIMFDGPIDAVWIENMNTVLDD 291
             QL+G  D  + EW DG+   T R +  +    +  R WI+FDG +D  W+EN+N++LDD
Sbjct: 951  DQLFGSLDLTTREWTDGLFTATLRRIIDNVRGESTKRHWIIFDGDVDPEWVENLNSLLDD 1010

Query: 292  NKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTTFFLSYQNE 351
            NK L L NGE + + N + ++FE ++L++A+ AT+SR GM++F  + ++    F +Y + 
Sbjct: 1011 NKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGMVWFSEEILTTQMIFQNYLDT 1070

Query: 352  LKEKLNEEQ 360
            L  +  + Q
Sbjct: 1071 LSNEPFDPQ 1079

>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 = 57.2 bits (137), Expect = 4e-09
 Identities = 70/448 (15%), Positives = 143/448 (31%), Gaps = 140/448 (31%)

Query: 2   QDILDIWLQ-------VQGTWMYLEPIFSSE---DIMRQMPEESRNFKTVDQIWKTIMLF 51
           +DIL ++          +      + I S E    I+      S   +     W      
Sbjct: 19  KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL---FW----TL 71

Query: 52  VNKDPHILQATEMEDMLK---NFNKCNLMLELIQKGLN--DYLEKK-RLF-----FPRFF 100
           ++K   ++Q   +E++L+    F    +  E  Q  +    Y+E++ RL+     F ++ 
Sbjct: 72  LSKQEEMVQKF-VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130

Query: 101 FLSNDELLEILSETKDPL-RVQPHLKKIFEASMALISG-----LVA------TLNLLFFP 148
                  L++    +  L  ++P  K +    +    G     +         +      
Sbjct: 131 VSRLQPYLKL----RQALLELRPA-KNVLIDGVL---GSGKTWVALDVCLSYKVQCKMDF 182

Query: 149 RFFFLS------NDELLEIL----------------SETKDPLR---VQPHLKKIFEVR- 182
           + F+L+       + +LE+L                  +   LR   +Q  L+++ + + 
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242

Query: 183 --HGLMV--------VGESFGGK-----TTAYQTLADSLTDIAAKKSATMKEFKTGY--- 224
             + L+V           +F        TT ++ + D L   A     ++          
Sbjct: 243 YENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFL-SAATTTHISLDHHSMTLTPD 301

Query: 225 ---------------------KIINPKSITM-GQLYGEFDSASHEWRDGILAK--TFREM 260
                                   NP+ +++  +   +  +    W+     K  T  E 
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361

Query: 261 AVST-TPD--RKWIMFDG----PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIF 313
           +++   P   RK  MFD     P     I            L LI  ++IK S+ M ++ 
Sbjct: 362 SLNVLEPAEYRK--MFDRLSVFPPS-AHIP--------TILLSLIWFDVIK-SDVMVVVN 409

Query: 314 ECEN---LEFASPATVSRVGMIYFELKC 338
           +      +E     +   +  IY ELK 
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKV 437

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	367
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	100.0
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	100.0
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.83
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.82
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	97.75
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.53
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.53
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.46
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.4
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.39
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.37
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.37
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.33
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.29
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.29
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.21
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.14
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.12
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.09
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.03
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.0
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.0
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.97
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	96.97
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	96.97
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.95
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.9
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	96.88
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.88
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.87
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.83
3pvs_A	447	Replication-associated recombination protein A; ma	96.83
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.81
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.81
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.79
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.76
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.75
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.75
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.71
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.71
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.66
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.66
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.64
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.54
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.48
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.42
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.41
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	96.39
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.3
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.24
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.2
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.12
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.98
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.76
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.65
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.52
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.18
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	94.94
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	94.87
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	94.8
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	94.66
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.63
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.59
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.57
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	94.34
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	94.34
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	94.33
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	94.33
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	94.32
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.29
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	94.24
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	94.23
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	94.21
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	94.19
1via_A	175	Shikimate kinase; structural genomics, transferase	94.06
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	94.06
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	94.06
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	94.06
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	94.04
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	94.04
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.03
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	93.99
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	93.95
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	93.92
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	93.92
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.91
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	93.87
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	93.87
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	93.87
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	93.78
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	93.75
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	93.74
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	93.73
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	93.71
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	93.69
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	93.65
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	93.61
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	93.61
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	93.61
3bos_A	242	Putative DNA replication factor; P-loop containing	93.53
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	93.49
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	93.49
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	93.47
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	93.46
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	93.46
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	93.43
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.4
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	93.4
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	93.38
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	93.36
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	93.35
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	93.31
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	93.24
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	93.22
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	93.21
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	93.21
2vli_A	183	Antibiotic resistance protein; transferase, tunica	93.18
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	93.16
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.12
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	93.08
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	93.08
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	93.01
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	93.01
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	93.01
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	92.99
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.98
3co5_A	143	Putative two-component system transcriptional RES	92.97
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	92.95
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	92.93
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	92.91
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	92.89
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	92.75
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	92.75
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	92.75
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	92.73
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	92.7
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	92.65
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	92.56
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	92.56
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	92.55
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	92.55
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	92.54
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	92.51
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	92.47
2eyu_A	261	Twitching motility protein PILT; pilus retraction	92.45
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.44
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	92.42
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	92.4
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	92.39
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	92.37
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	92.27
1tue_A	212	Replication protein E1; helicase, replication, E1E	92.23
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	92.22
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	92.17
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	92.11
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	92.07
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	92.05
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	92.03
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	91.99
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	91.88
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	91.86
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	91.85
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	91.82
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	91.79
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	91.78
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	91.73
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	91.71
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	91.68
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	91.66
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	91.51
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	91.43
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	91.41
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	91.41
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	91.27
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	91.21
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	91.15
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	91.12
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	91.04
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	90.93
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	90.91
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	90.89
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	90.88
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	90.79
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	90.75
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	90.71
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	90.7
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	90.65
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	90.55
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	90.43
4a74_A	231	DNA repair and recombination protein RADA; hydrola	90.43
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	90.41
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	90.41
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	90.24
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	90.23
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	90.23
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	90.2
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	90.15
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	90.13
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	90.12
1b0u_A	262	Histidine permease; ABC transporter, transport pro	90.1
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	90.03
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	90.01
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	90.01
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	90.0
1sgw_A	214	Putative ABC transporter; structural genomics, P p	89.99
1g6h_A	257	High-affinity branched-chain amino acid transport	89.98
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	89.95
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	89.88
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	89.83
3kta_A	182	Chromosome segregation protein SMC; structural mai	89.78
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	89.77
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	89.75
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	89.73
1ji0_A	240	ABC transporter; ATP binding protein, structural g	89.73
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	89.71
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	89.68
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	89.67
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	89.66
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	89.64
2qgz_A	308	Helicase loader, putative primosome component; str	89.62
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	89.56
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	89.54
2og2_A	359	Putative signal recognition particle receptor; nuc	89.53
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	89.53
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	89.48
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	89.47
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	89.4
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	89.39
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	89.35
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	89.34
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	89.29
2ghi_A	260	Transport protein; multidrug resistance protein, M	89.21
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	89.17
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	89.14
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	89.13
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	89.06
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	89.0
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	88.88
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	88.81
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	88.74
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	88.69
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	88.68
1p9r_A	418	General secretion pathway protein E; bacterial typ	88.63
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	88.62
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	88.61
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	88.58
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	88.54
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	88.41
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	88.36
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	88.29
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	88.27
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	88.18
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	88.12
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	88.11
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	88.08
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	88.07
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	88.04
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	87.84
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	87.76
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	87.73
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	87.71
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	87.6
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	87.54
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	87.53
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	87.49
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	87.41
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	87.41
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	87.16
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	87.09
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	87.05
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	87.0
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	86.97
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	86.92
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	86.82
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	86.82
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	86.76
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	86.61
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	86.6
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	86.58
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	86.42
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	86.41
2wji_A	165	Ferrous iron transport protein B homolog; membrane	86.15
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	86.06
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	86.0
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	85.97
2cvh_A	220	DNA repair and recombination protein RADB; filamen	85.91
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	85.88
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	85.81
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	85.81
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	85.76
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	85.66
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	85.62
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	85.58
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	85.52
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	85.45
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	85.43
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	85.43
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	85.33
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	85.29
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	85.25
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	85.2
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	85.13
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	85.13
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	84.99
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	84.98
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	84.98
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	84.95
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	84.95
2ged_A	193	SR-beta, signal recognition particle receptor beta	84.78
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	84.7
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	84.68
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	84.63
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	84.43
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	84.36
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	84.3
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	84.28
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	84.19
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	84.18
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	84.16
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	84.07
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	84.06
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	84.04
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	83.96
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	83.96
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	83.94
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	83.87
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	83.78
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	83.75
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	83.74
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	83.7
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	83.65
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	83.53
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	83.52
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	83.44
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	83.43
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	83.36
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	83.29
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	83.86
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	83.25
1nrj_B	218	SR-beta, signal recognition particle receptor beta	83.25
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	83.23
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	83.22
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	83.16
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	83.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	82.94
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	82.8
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	82.75
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	82.65
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	82.61
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	82.6
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	82.57
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	82.56
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	82.5
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	82.48
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	82.43
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	82.29
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	82.29
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	82.26
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	82.2
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	82.16
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	82.09
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	82.08
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	82.04
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	81.99
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	81.98
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	81.98
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	81.96
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	81.93
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	81.92
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	81.9
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	81.84
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	81.8
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	81.79
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	81.61
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	81.55
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	81.5
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	81.39
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	81.33
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	81.28
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	81.18
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	81.16
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	81.11
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	81.1
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	81.02
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	80.98
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	80.98
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	80.95
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	80.88
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	80.8
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	80.69
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	80.64
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	80.64
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	80.5
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	80.48
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	80.36
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	80.35
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	80.33
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	80.29
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	80.29
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	80.28
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	80.26
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	80.24
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	80.17
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	80.12
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	80.11
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	80.05
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	80.04
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	80.03

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=100.00  E-value=1.2e-80  Score=719.91  Aligned_cols=172  Identities=37%  Similarity=0.774  Sum_probs=160.6

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILA  254 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~  254 (367)
                      |++++.+|||+|++||+|||||++|++|++|++.+.+        .++.+++|||||+|+++|||++|+.|+||+||+|+
T Consensus       899 Lye~~~vRhGvmlVGp~gsGKTt~~~~L~~al~~l~~--------~~~~~~~iNPKait~~eLyG~~d~~T~EW~DGvls  970 (3245)
T 3vkg_A          899 LHQILNINHGVMMVGPSGGGKTTSWEVYLEAIEQVDN--------IKSEAHVMDPKAITKDQLFGSLDLTTREWTDGLFT  970 (3245)
T ss_dssp             HHHHHTTCSEEEEECSSSSSHHHHHHHHHHHHTTTTT--------CEEEEEEECTTTSCHHHHHEEECTTTCCEEECHHH
T ss_pred             HHHHHHheeeEEEECCCCCCHHHHHHHHHHHHHHhhC--------CCceEEEECCCCCchhhhceeecCCCCeeeccHHH
Confidence            5566779999999999999999999999999987743        24677899999999999999999999999999999


Q ss_pred             HHHHHHhcC---CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceee
Q psy4734         255 KTFREMAVS---TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGM  331 (367)
Q Consensus       255 ~~~r~~~~~---~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~  331 (367)
                      +++|+++..   +..+++|||||||||+.|||||||||||||+|||+|||||+++++|++||||+||++|||||||||||
T Consensus       971 ~i~R~~~~~~~~~~~~~~WIvfDGpVDa~WIEnlNsVLDDNK~LtL~nGErI~l~~~~~liFEv~dL~~ASPATVSRcGm 1050 (3245)
T 3vkg_A          971 ATLRRIIDNVRGESTKRHWIIFDGDVDPEWVENLNSLLDDNKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGM 1050 (3245)
T ss_dssp             HHHHHHHTTSSSGGGEEEEEEEESCCCHHHHTTTHHHHSSSCEECCTTSCCEECCTTEEEEEEESCCTTCCHHHHHTSEE
T ss_pred             HHHHHHHhcccCCCCCceEEEECCCCCHHHHHHHHHHhcCCCeeecCCCCeeecCCCCEEEEEeccccccChhhheeeeE
Confidence            999999753   34568999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecccCCchHHHHHHHHHHhhh
Q psy4734         332 IYFELKCISWTTFFLSYQNELKE  354 (367)
Q Consensus       332 v~~~~~~~~~~~~~~swl~~~~~  354 (367)
                      |||++.++||+|++.||+++++.
T Consensus      1051 Vy~~~~~l~~~~~~~swl~~~~~ 1073 (3245)
T 3vkg_A         1051 VWFSEEILTTQMIFQNYLDTLSN 1073 (3245)
T ss_dssp             EECCTTSSCHHHHHHHHHHHHTT
T ss_pred             EEEcccccCchHHHHHHHHhCcc
Confidence            99999999999999999998864

>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=100.00  E-value=2.9e-76  Score=681.69  Aligned_cols=174  Identities=32%  Similarity=0.573  Sum_probs=160.3

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILA  254 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~  254 (367)
                      +++++..|||||++||+|||||+++++|++|++.+.+        .++..+++|||++|++||||.+|++|++|+||+++
T Consensus       916 l~e~~~~r~gvmlvGptgsGKTt~~~~La~al~~l~~--------~~~~~~~inpk~~t~~el~G~~d~~t~eW~DGils  987 (2695)
T 4akg_A          916 FYYMQKTQQALILVGKAGCGKTATWKTVIDAMAIFDG--------HANVVYVIDTKVLTKESLYGSMLKATLEWRDGLFT  987 (2695)
T ss_dssp             HHHHHHHCSEEEEECSTTSSHHHHHHHHHHHHHHHTC--------CEEEEEEECTTTSCHHHHTTEECTTTCCEECCSHH
T ss_pred             HHHHHHhcceEEEECCCCCCHHHHHHHHHHHHHHhcC--------CCceEEEeCCCCCCHHHhcceecCCCCeEecChHH
Confidence            4556679999999999999999999999999988753        24567789999999999999999999999999999


Q ss_pred             HHHHHHhcCCC----CCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee
Q psy4734         255 KTFREMAVSTT----PDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG  330 (367)
Q Consensus       255 ~~~r~~~~~~~----~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg  330 (367)
                      +++|+++....    ..++|||||||+|+.|||+|||||||||+|||+|||||+++++|+++|||+||++||||||||||
T Consensus       988 ~~~R~~~~~~~~~~~~~~~WivfDG~vD~~WIE~LNsVLDDNk~L~L~ngErI~l~~~~~llFEv~dL~~ASPATVSRcG 1067 (2695)
T 4akg_A          988 SILRRVNDDITGTFKNSRIWVVFDSDLDPEYVEAMNSVLDDNKILTLPNGERLPIPPNFRILFETDNLDHTTPATITRCG 1067 (2695)
T ss_dssp             HHHHHHHTCCCSSCSSEEEEEEECSCCCHHHHHTTHHHHSTTCEEECSSSCEEECCSSCEEEEEESCCTTSCHHHHHHSE
T ss_pred             HHHHHHHhccccccCCCCeEEEECCCCCHHHHHHHHHHhcCCCccccCCCCEEecCCCcEEEEEecccccCCccceeeee
Confidence            99999876532    23899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEecccCCchHHHHHHHHHHhhhhh
Q psy4734         331 MIYFELKCISWTTFFLSYQNELKEKL  356 (367)
Q Consensus       331 ~v~~~~~~~~~~~~~~swl~~~~~~~  356 (367)
                      |||+++.++||+|++++|+++++..+
T Consensus      1068 mvy~~~~~l~~~~~~~~wl~~~~~~~ 1093 (2695)
T 4akg_A         1068 LLWFSTDVCSISSKIDHLLNKSYEAL 1093 (2695)
T ss_dssp             EEECCSCSSCHHHHHHHHHHHHHHHH
T ss_pred             EEEecCCcCChHHHHHHHHHhcchhh
Confidence            99999999999999999999886543

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.83  E-value=8.2e-10  Score=130.18  Aligned_cols=121  Identities=22%  Similarity=0.430  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhh-hcCcccccCHHHHHHHhhc-------------------CCCcc--------
Q psy4734          67 MLKNFNKCNLMLELIQKGLNDYLEKKRL-FFPRFFFLSNDELLEILSE-------------------TKDPL--------  118 (367)
Q Consensus        67 ~l~~l~~~~~~Le~i~k~L~~yLe~KR~-~FPRfyFLsdedLl~il~~-------------------~~~~~--------  118 (367)
                      +.+....+...|..+...|+.|++.||. .+-.-.|.+.+|+..+|+.                   .++|.        
T Consensus       221 f~~~v~~We~~L~~~~~il~~W~~vQ~~W~yLe~IF~~s~DI~~qLP~E~~rF~~vd~~~~~im~~~~~~~~v~~~~~~~  300 (3245)
T 3vkg_A          221 FEEEANHWDDRLNKVRSLLDVWIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSINSEFIAILKKVSGAPLILEVLAIE  300 (3245)
T ss_dssp             GGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-----CTTTSHHHHHHHHHHHHHHHHHHHHHHHSCBHHHHTTST
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHhHHHHHHHHHHHHHHHHHHHHHhcCCceEeecCcc
Confidence            3345668888999999999999999998 3333334444554443331                   12222        


Q ss_pred             chhhhHHHHHHHhHhhhhhhhhhh--cccCCCceeecchHHHHHHHHhcCCcccchhhHHHHHhhhhhhee
Q psy4734         119 RVQPHLKKIFEASMALISGLVATL--NLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLMV  187 (367)
Q Consensus       119 ~i~~~l~k~f~~i~~l~~~l~~~~--~~~~fprf~f~s~~~Ll~ils~~~~~~~lq~~l~k~~~~~~~v~~  187 (367)
                      .+...++++-+....+..+|.+.+  +|..||||||+||+||++||+++++|..+|+|+.|||++.+.+.|
T Consensus       301 ~~~~~L~~~~~~Le~iqk~L~~yLE~KR~~FPRFyFlSd~eLLeILs~~~dp~~vq~hl~K~F~~I~~l~f  371 (3245)
T 3vkg_A          301 RIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSKDIIKIQKHFRKMFAGLANLTL  371 (3245)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHTSGGGGGSCHHHHHHHHHGGGCGGGTGGGGGGTCSSCCEEEE
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhhccCcHHHHHHHHcCCChHHHHHHHHHHHhhhheEEe
Confidence            233456666666677777777765  889999999999999999999999999999999999997766654

>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=98.82  E-value=2.8e-09  Score=124.94  Aligned_cols=121  Identities=21%  Similarity=0.238  Sum_probs=92.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hcCcccccCHHHHHHHhhc-------------------CCCccc------
Q psy4734          66 DMLKNFNKCNLMLELIQKGLNDYLEKKRL-FFPRFFFLSNDELLEILSE-------------------TKDPLR------  119 (367)
Q Consensus        66 ~~l~~l~~~~~~Le~i~k~L~~yLe~KR~-~FPRfyFLsdedLl~il~~-------------------~~~~~~------  119 (367)
                      .+.+....+...|..++..|+.|++.||. .+-.-.|.+.+|+.++|+.                   .++|..      
T Consensus       279 ~f~~~~~~w~~~L~~~~~~l~~w~~vQ~~W~yLe~iF~~s~di~~qLp~e~~~F~~vd~~~~~im~~~~~~~~v~~~~~~  358 (2695)
T 4akg_A          279 IFEQDCLDLESKLTKLSEIQVNWVEVQFYWLDLYGILGENLDIQNFLPLETSKFKSLTSEYKMITTRAFQLDTTIEVIHI  358 (2695)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSHHHHHCHHHHHHHHHHHHHHHHHHHHHHTTCCSGGGGGS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcCcHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhCCCeeeeccc
Confidence            45556778889999999999999999998 4444455566666665542                   223322      


Q ss_pred             --hhhhHHHHHHHhHhhhhhhhhhh--cccCCCceeecchHHHHHHHHhcCCcccchhhHHHHHhhhhhhe
Q psy4734         120 --VQPHLKKIFEASMALISGLVATL--NLLFFPRFFFLSNDELLEILSETKDPLRVQPHLKKIFEVRHGLM  186 (367)
Q Consensus       120 --i~~~l~k~f~~i~~l~~~l~~~~--~~~~fprf~f~s~~~Ll~ils~~~~~~~lq~~l~k~~~~~~~v~  186 (367)
                        +...|+++.+....+..+|.+.+  +|..||||||+||+||++++++++++..+|+|+.|||++.+.+.
T Consensus       359 ~~~~~~L~~~~~~Le~iqk~L~~yLe~KR~~FPRFyFlsd~eLLeiLs~~~dp~~vq~hl~k~F~~i~~l~  429 (2695)
T 4akg_A          359 PNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHDQVSKFMKKMFGSIESII  429 (2695)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTHHHHCHHHHHHHHHTTTTSGGGHHHHHHHTSSEEEEE
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCcceecCcHHHHHHHhcCCCHHHHHHHHHHHhhhhhhEE
Confidence              22346666666677777777765  88999999999999999999999999999999999999776654

>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=97.75  E-value=4.5e-05  Score=72.38  Aligned_cols=145  Identities=21%  Similarity=0.294  Sum_probs=82.5

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhh--c-----ccccc------------ceeEEEEeCCCCCccccccceec
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKK--S-----ATMKE------------FKTGYKIINPKSITMGQLYGEFD  242 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~--~-----~~~~~------------~~v~~~~inpka~t~~~l~G~~d  242 (367)
                      ..++++.||+|+|||++.+.++..+.......  .     .+...            .+..+.. -|...+..+++|..+
T Consensus        45 ~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~g~~~  123 (350)
T 1g8p_A           45 IGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPVVD-LPLGVSEDRVVGALD  123 (350)
T ss_dssp             GCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCCCEEEECCCEEE-ECTTCCHHHHHCEEC
T ss_pred             CceEEEECCCCccHHHHHHHHHHhCccccccccccccccccccccchhhhhccccccCCCcccc-cCCCcchhhheeech
Confidence            45699999999999999999887653210000  0     00000            0000111 123344556777643


Q ss_pred             cc------ccccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEe
Q psy4734         243 SA------SHEWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFE  314 (367)
Q Consensus       243 ~~------~~~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE  314 (367)
                      ..      ...+..|.+...          ....+++|  ..++..-.+.|..++++.....-..|.....+.++.+|.-
T Consensus       124 ~~~~~~~~~~~~~~g~~~~a----------~~~vl~iDEi~~l~~~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~  193 (350)
T 1g8p_A          124 IERAISKGEKAFEPGLLARA----------NRGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGS  193 (350)
T ss_dssp             HHHHHHHCGGGEECCHHHHH----------TTEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEE
T ss_pred             hhhhhcCCceeecCceeeec----------CCCEEEEeChhhCCHHHHHHHHHHHhcCceEEEecceEEeeCCceEEEEE
Confidence            21      123455554322          24689999  3344555555656665543333445666777777777776


Q ss_pred             cCCCC-ccCcchhhceee-EEeccc
Q psy4734         315 CENLE-FASPATVSRVGM-IYFELK  337 (367)
Q Consensus       315 ~~~l~-~asPatvsRcg~-v~~~~~  337 (367)
                      +.... ...|+..+||++ +++.+-
T Consensus       194 ~n~~~~~l~~~L~~R~~~~~~l~~~  218 (350)
T 1g8p_A          194 GNPEEGDLRPQLLDRFGLSVEVLSP  218 (350)
T ss_dssp             ECSCSCCCCHHHHTTCSEEEECCCC
T ss_pred             eCCCCCCCCHHHHhhcceEEEcCCC
Confidence            55323 688999999998 778765

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.53  E-value=6e-05  Score=70.35  Aligned_cols=150  Identities=19%  Similarity=0.237  Sum_probs=84.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC----ccccccceeccccccccc-chHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI----TMGQLYGEFDSASHEWRD-GILAKTF  257 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~----t~~~l~G~~d~~~~~W~d-Gil~~~~  257 (367)
                      +.++|.||+|+|||++.+.++..+..-.         .++  ..++...+    ...+++|.... ...+.. |.+..++
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~~~~~~---------~~~--~~~~~~~~~~~~~~~~l~g~~~~-~~~~~~~~~~~~~~  115 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAATLFDTE---------EAM--IRIDMTEYMEKHAVSRLIGAPPG-YVGYEEGGQLTEAV  115 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHHHHSCG---------GGE--EEEEGGGCCSTTHHHHHHCCCTT-STTTTTCCHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHHHHcCCC---------cce--EEeecccccccccHHHhcCCCCc-cccccccchHHHHH
Confidence            4688999999999999999988764211         112  22333332    24556665322 223333 6777776


Q ss_pred             HHHhcCCCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC------------------
Q psy4734         258 REMAVSTTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN------------------  317 (367)
Q Consensus       258 r~~~~~~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~------------------  317 (367)
                      +..      ....+++|-  .+++.-...|..+|++. .+.-..|..+.+++ ..+|+-+..                  
T Consensus       116 ~~~------~~~vl~lDEi~~l~~~~~~~Ll~~le~~-~~~~~~~~~~~~~~-~iiI~ttn~~~~~i~~~~~~~~~~~~l  187 (311)
T 4fcw_A          116 RRR------PYSVILFDAIEKAHPDVFNILLQMLDDG-RLTDSHGRTVDFRN-TVIIMTSNLGSPLILEGLQKGWPYERI  187 (311)
T ss_dssp             HHC------SSEEEEEETGGGSCHHHHHHHHHHHHHS-EEECTTSCEEECTT-EEEEEEESTTHHHHHTTTTSCCCSSTH
T ss_pred             HhC------CCeEEEEeChhhcCHHHHHHHHHHHhcC-EEEcCCCCEEECCC-cEEEEecccCHHHHHhhhcccccHHHH
Confidence            653      246899992  23444455555555543 33334455555543 336665544                  


Q ss_pred             --------CCccCcchhhcee-eEEecccCC-chHHHHHHHHHHh
Q psy4734         318 --------LEFASPATVSRVG-MIYFELKCI-SWTTFFLSYQNEL  352 (367)
Q Consensus       318 --------l~~asPatvsRcg-~v~~~~~~~-~~~~~~~swl~~~  352 (367)
                              .....|+..+||. ++.+.|-.- ....++...++..
T Consensus       188 ~~~~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~  232 (311)
T 4fcw_A          188 RDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYL  232 (311)
T ss_dssp             HHHTHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHH
T ss_pred             HHHHHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHH
Confidence                    2367899999994 555555331 1334445445443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.53  E-value=0.0002  Score=67.80  Aligned_cols=134  Identities=16%  Similarity=0.161  Sum_probs=80.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      ..+++.||+|+|||++.+.++..++              .....++..++.               ..|-+..+++.   
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~~~--------------~~~~~~~~~~~~---------------~~~~~~~~~~~---  103 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYEMS--------------ANIKTTAAPMIE---------------KSGDLAAILTN---  103 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHTT--------------CCEEEEEGGGCC---------------SHHHHHHHHHT---
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHhC--------------CCeEEecchhcc---------------chhHHHHHHHh---
Confidence            4689999999999999988865431              112223332221               12233334433   


Q ss_pred             CCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeeccc----c--eeecCCCCeEEEecCCCCccCcchhhce-eeEE
Q psy4734         263 STTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLING----E--IIKMSNTMNLIFECENLEFASPATVSRV-GMIY  333 (367)
Q Consensus       263 ~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~g----e--~i~l~~~~~~ifE~~~l~~asPatvsRc-g~v~  333 (367)
                        ......+++|  +.+.+.+.+.|..++++.....+..+    .  ++.++ ++.+|.-+.......|+..+|| -.++
T Consensus       104 --~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~atn~~~~l~~~L~~R~~~~i~  180 (338)
T 3pfi_A          104 --LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLP-KFTLIGATTRAGMLSNPLRDRFGMQFR  180 (338)
T ss_dssp             --CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCC-CCEEEEEESCGGGSCHHHHTTCSEEEE
T ss_pred             --ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCC-CeEEEEeCCCccccCHHHHhhcCEEee
Confidence              2345789999  44567788888888877654433221    2  22333 6889999999888999999999 5667


Q ss_pred             ecccCCc-hHHHHHHHHHH
Q psy4734         334 FELKCIS-WTTFFLSYQNE  351 (367)
Q Consensus       334 ~~~~~~~-~~~~~~swl~~  351 (367)
                      +.+-... ...++...+..
T Consensus       181 l~~~~~~e~~~il~~~~~~  199 (338)
T 3pfi_A          181 LEFYKDSELALILQKAALK  199 (338)
T ss_dssp             CCCCCHHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHHh
Confidence            7665322 33344444443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.46  E-value=0.00014  Score=67.89  Aligned_cols=141  Identities=16%  Similarity=0.149  Sum_probs=79.3

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      +.++|.||||+|||++.+.++..+.......       ......+++..+. .+++|..    .    +-+..+++.+  
T Consensus        68 ~~vll~G~~GtGKT~la~~la~~l~~~~~~~-------~~~~~~~~~~~l~-~~~~g~~----~----~~~~~~~~~~--  129 (309)
T 3syl_A           68 LHMSFTGNPGTGKTTVALKMAGLLHRLGYVR-------KGHLVSVTRDDLV-GQYIGHT----A----PKTKEVLKRA--  129 (309)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHHHTTSSS-------SCCEEEECGGGTC-CSSTTCH----H----HHHHHHHHHH--
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCcC-------CCcEEEEcHHHhh-hhccccc----H----HHHHHHHHhc--
Confidence            3589999999999999999998876532110       1123345554442 3344421    1    1223344443  


Q ss_pred             CCCCCceEEEEcCCC------------ChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-----CCccCcch
Q psy4734         263 STTPDRKWIMFDGPI------------DAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-----LEFASPAT  325 (367)
Q Consensus       263 ~~~~~~~wivfDG~~------------d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-----l~~asPat  325 (367)
                          ....+++| ++            +....+.|..++++.             +.++.+|+-+..     +....|+.
T Consensus       130 ----~~~vl~iD-Eid~l~~~~~~~~~~~~~~~~Ll~~l~~~-------------~~~~~~i~~~~~~~~~~~~~~~~~l  191 (309)
T 3syl_A          130 ----MGGVLFID-EAYYLYRPDNERDYGQEAIEILLQVMENN-------------RDDLVVILAGYADRMENFFQSNPGF  191 (309)
T ss_dssp             ----TTSEEEEE-TGGGSCCCC---CCTHHHHHHHHHHHHHC-------------TTTCEEEEEECHHHHHHHHHHSTTH
T ss_pred             ----CCCEEEEE-ChhhhccCCCcccccHHHHHHHHHHHhcC-------------CCCEEEEEeCChHHHHHHHhhCHHH
Confidence                23588888 33            444455555666543             234555554421     22345999


Q ss_pred             hhce-eeEEecccCC-chHHHHHHHHHHhhhhhhHH
Q psy4734         326 VSRV-GMIYFELKCI-SWTTFFLSYQNELKEKLNEE  359 (367)
Q Consensus       326 vsRc-g~v~~~~~~~-~~~~~~~swl~~~~~~~~~~  359 (367)
                      .+|| -.+++.+-+- ....++..++......+.++
T Consensus       192 ~~R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~  227 (309)
T 3syl_A          192 RSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPE  227 (309)
T ss_dssp             HHHEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHH
T ss_pred             HHhCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHH
Confidence            9999 6777776542 35556666666544444443

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=97.40  E-value=0.0013  Score=57.09  Aligned_cols=118  Identities=19%  Similarity=0.220  Sum_probs=68.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS  263 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~  263 (367)
                      .+++.||+|+|||++.+.+++.+..-..         .+.+..+++....     |          ...+...+......
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~~~~~~~---------~~~~~~~~~~~~~-----~----------~~~~~~~~~~~~~~   95 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARDLFGENW---------RDNFIEMNASDER-----G----------IDVVRHKIKEFART   95 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHHGGGG---------GGGEEEEETTCTT-----C----------HHHHHHHHHHHHTS
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhcccc---------ccceEEecccccc-----C----------hHHHHHHHHHHhcc
Confidence            4889999999999999998876642211         1122223332110     0          01122223332221


Q ss_pred             ---CCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         264 ---TTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       264 ---~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                         ....+..+++|.  .++....+.|..++++.             ++++.+|+-+.......|+..+||..+.+.+-.
T Consensus        96 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~-------------~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~  162 (226)
T 2chg_A           96 APIGGAPFKIIFLDEADALTADAQAALRRTMEMY-------------SKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVP  162 (226)
T ss_dssp             CCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHT-------------TTTEEEEEEESCGGGSCHHHHTTSEEEECCCCC
T ss_pred             cCCCccCceEEEEeChhhcCHHHHHHHHHHHHhc-------------CCCCeEEEEeCChhhcCHHHHHhCceeecCCCC
Confidence               234578999993  23344455555555431             345667777766677889999999998887654

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.39  E-value=0.00052  Score=72.49  Aligned_cols=147  Identities=16%  Similarity=0.185  Sum_probs=89.8

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCC----CCCccccccceecccccccccchHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINP----KSITMGQLYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inp----ka~t~~~l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      .++|.||+|+|||++.+.++..+.    .          ....++.    ...+...++|.-..-.+.=..|.+...+|+
T Consensus       490 ~~ll~G~~GtGKT~la~~la~~l~----~----------~~~~i~~s~~~~~~~~~~l~g~~~g~~g~~~~~~l~~~~~~  555 (758)
T 1r6b_X          490 SFLFAGPTGVGKTEVTVQLSKALG----I----------ELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIK  555 (758)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT----C----------EEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHTTHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhc----C----------CEEEEechhhcchhhHhhhcCCCCCCcCccccchHHHHHHh
Confidence            478999999999999999988762    1          1222332    233466777753110011123566677765


Q ss_pred             HhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC------------------
Q psy4734         260 MAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE------------------  319 (367)
Q Consensus       260 ~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~------------------  319 (367)
                      .      ....++||  ...++...+.|..+||+. .++-..|..+.+ .++.+|+-+..-.                  
T Consensus       556 ~------~~~vl~lDEi~~~~~~~~~~Ll~~le~~-~~~~~~g~~~~~-~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~  627 (758)
T 1r6b_X          556 H------PHAVLLLDEIEKAHPDVFNILLQVMDNG-TLTDNNGRKADF-RNVVLVMTTNAGVRETERKSIGLIHQDNSTD  627 (758)
T ss_dssp             C------SSEEEEEETGGGSCHHHHHHHHHHHHHS-EEEETTTEEEEC-TTEEEEEEECSSCC-----------------
T ss_pred             C------CCcEEEEeCccccCHHHHHHHHHHhcCc-EEEcCCCCEEec-CCeEEEEecCcchhhhhhcccCccccchHHH
Confidence            3      35799999  345666777777888764 455566766666 4555665443211                  


Q ss_pred             -------ccCcchhhce-eeEEecccCC-chHHHHHHHHHHh
Q psy4734         320 -------FASPATVSRV-GMIYFELKCI-SWTTFFLSYQNEL  352 (367)
Q Consensus       320 -------~asPatvsRc-g~v~~~~~~~-~~~~~~~swl~~~  352 (367)
                             ...|+..+|| .+|++.+-.- ....++...+..+
T Consensus       628 ~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~  669 (758)
T 1r6b_X          628 AMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVEL  669 (758)
T ss_dssp             CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHHHHH
Confidence                   5789999999 6677766432 2344555555443

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.37  E-value=0.00018  Score=67.38  Aligned_cols=132  Identities=12%  Similarity=0.131  Sum_probs=69.6

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      ..++++.||||+|||++.+.++..++              ..+..+++     .++.+.+-    .-..+.+..+++.+.
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~l~--------------~~~i~v~~-----~~l~~~~~----g~~~~~i~~~f~~a~   92 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRKMG--------------INPIMMSA-----GELESGNA----GEPAKLIRQRYREAA   92 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHHHT--------------CCCEEEEH-----HHHHCC-------HHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC--------------CCEEEEeH-----HHhhhccC----chhHHHHHHHHHHHH
Confidence            45788899999999999999988762              11122222     22222211    011233444444442


Q ss_pred             cC-CCCCceEEEEcCCCCh----------------HhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcc
Q psy4734         262 VS-TTPDRKWIMFDGPIDA----------------VWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPA  324 (367)
Q Consensus       262 ~~-~~~~~~wivfDG~~d~----------------~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPa  324 (367)
                      .. ....+..+++| ++|.                .....|..+||+.....+...+...-.+++.+|.=+.+.....||
T Consensus        93 ~~~~~~~~~vl~iD-EiD~~~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~a  171 (293)
T 3t15_A           93 EIIRKGNMCCLFIN-DLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAP  171 (293)
T ss_dssp             HHHTTSSCCCEEEE-CCC--------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CH
T ss_pred             HHHhcCCCeEEEEe-chhhhcCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHH
Confidence            11 23456788888 4432                233566667776554455444444445678888888888888899


Q ss_pred             hh--hceeeEEeccc
Q psy4734         325 TV--SRVGMIYFELK  337 (367)
Q Consensus       325 tv--sRcg~v~~~~~  337 (367)
                      ..  .|+-.++.-|+
T Consensus       172 l~R~~R~d~~i~~P~  186 (293)
T 3t15_A          172 LIRDGRMEKFYWAPT  186 (293)
T ss_dssp             HHHHHHEEEEEECCC
T ss_pred             HhCCCCCceeEeCcC
Confidence            88  47776444453

>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=97.37  E-value=0.0013  Score=61.52  Aligned_cols=122  Identities=18%  Similarity=0.210  Sum_probs=75.3

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc-cccccceecccccccccchHHHHHHHHh
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT-MGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t-~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      +++++.||+|+|||++.+.++..++              .....++..+++ .++++|                .++.  
T Consensus        39 ~~vll~G~~GtGKT~la~~i~~~~~--------------~~~~~~~~~~~~~~~~l~~----------------~l~~--   86 (324)
T 1hqc_A           39 EHLLLFGPPGLGKTTLAHVIAHELG--------------VNLRVTSGPAIEKPGDLAA----------------ILAN--   86 (324)
T ss_dssp             CCCEEECCTTCCCHHHHHHHHHHHT--------------CCEEEECTTTCCSHHHHHH----------------HHTT--
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhC--------------CCEEEEeccccCChHHHHH----------------HHHH--
Confidence            6799999999999999998877552              112234544432 112221                2221  


Q ss_pred             cCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccc----eee-cCCCCeEEEecCCCCccCcchhhcee-eEE
Q psy4734         262 VSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGE----IIK-MSNTMNLIFECENLEFASPATVSRVG-MIY  333 (367)
Q Consensus       262 ~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge----~i~-l~~~~~~ifE~~~l~~asPatvsRcg-~v~  333 (367)
                        .......+++|  +.++....+.|..++++.....+....    .+. -.+++.+|.-+.......|+..+||+ .+.
T Consensus        87 --~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~  164 (324)
T 1hqc_A           87 --SLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEH  164 (324)
T ss_dssp             --TCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEE
T ss_pred             --hccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEe
Confidence              12345799999  335555666676777665433322111    121 23468899999888889999999996 777


Q ss_pred             ecccC
Q psy4734         334 FELKC  338 (367)
Q Consensus       334 ~~~~~  338 (367)
                      +.+-.
T Consensus       165 l~~~~  169 (324)
T 1hqc_A          165 LEYYT  169 (324)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            77543

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.33  E-value=0.00036  Score=65.97  Aligned_cols=130  Identities=16%  Similarity=0.142  Sum_probs=77.5

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceec--cccc--ccccchHHH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFD--SASH--EWRDGILAK  255 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d--~~~~--~W~dGil~~  255 (367)
                      ....++++.||||+|||++.+.++..+..            ++.....+|. .+..++.|...  +..+  .|..|.+  
T Consensus        44 ~~~~~vll~G~pGtGKT~la~~la~~~~~------------~~~~i~~~~~-~~~~~l~g~~~~~~~~~~~~~~~g~l--  108 (331)
T 2r44_A           44 CTGGHILLEGVPGLAKTLSVNTLAKTMDL------------DFHRIQFTPD-LLPSDLIGTMIYNQHKGNFEVKKGPV--  108 (331)
T ss_dssp             HHTCCEEEESCCCHHHHHHHHHHHHHTTC------------CEEEEECCTT-CCHHHHHEEEEEETTTTEEEEEECTT--
T ss_pred             HcCCeEEEECCCCCcHHHHHHHHHHHhCC------------CeEEEecCCC-CChhhcCCceeecCCCCceEeccCcc--
Confidence            34568999999999999999988775521            1111112222 23455666542  2222  2444433  


Q ss_pred             HHHHHhcCCCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC------ccCcchhh
Q psy4734         256 TFREMAVSTTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE------FASPATVS  327 (367)
Q Consensus       256 ~~r~~~~~~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~------~asPatvs  327 (367)
                                 ...++++|.  .+++.-...|..++++. ..++ .|..+..+..+.++ -+++-.      ...|+..+
T Consensus       109 -----------~~~vl~iDEi~~~~~~~~~~Ll~~l~~~-~~~~-~g~~~~~~~~~~vi-at~np~~~~~~~~l~~~l~~  174 (331)
T 2r44_A          109 -----------FSNFILADEVNRSPAKVQSALLECMQEK-QVTI-GDTTYPLDNPFLVL-ATQNPVEQEGTYPLPEAQVD  174 (331)
T ss_dssp             -----------CSSEEEEETGGGSCHHHHHHHHHHHHHS-EEEE-TTEEEECCSSCEEE-EEECTTCCSCCCCCCHHHHT
T ss_pred             -----------cccEEEEEccccCCHHHHHHHHHHHhcC-ceee-CCEEEECCCCEEEE-EecCCCcccCcccCCHHHHh
Confidence                       136899992  23444444555555543 3444 57777888777666 444422      27899999


Q ss_pred             ceee-EEecccC
Q psy4734         328 RVGM-IYFELKC  338 (367)
Q Consensus       328 Rcg~-v~~~~~~  338 (367)
                      ||++ +++++-+
T Consensus       175 Rf~~~i~i~~p~  186 (331)
T 2r44_A          175 RFMMKIHLTYLD  186 (331)
T ss_dssp             TSSEEEECCCCC
T ss_pred             heeEEEEcCCCC
Confidence            9997 8887654

>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=97.29  E-value=0.001  Score=63.27  Aligned_cols=145  Identities=11%  Similarity=0.086  Sum_probs=79.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhc-c---------ccccceeEEEEeCCCCCccccccceecccccccccc
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKS-A---------TMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDG  251 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~-~---------~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dG  251 (367)
                      .|.++|.||+|+|||++.+.+++++..-..... +         ...+....+..++|..-            +.+-.-.
T Consensus        24 ~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~------------~~~~~i~   91 (334)
T 1a5t_A           24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKG------------KNTLGVD   91 (334)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTT------------CSSBCHH
T ss_pred             ceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEecccc------------CCCCCHH
Confidence            356899999999999999999988742110000 0         00000011222333210            0111101


Q ss_pred             hHHHHHHHHhcCC-CCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee
Q psy4734         252 ILAKTFREMAVST-TPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG  330 (367)
Q Consensus       252 il~~~~r~~~~~~-~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg  330 (367)
                      .+-.+++.+.... ...++-+|+| ++|..-.+..|.+|.   .  |   |  ..++++.+|+=+++....-|+..|||.
T Consensus        92 ~ir~l~~~~~~~~~~~~~kvviId-ead~l~~~a~naLLk---~--l---E--ep~~~~~~Il~t~~~~~l~~ti~SRc~  160 (334)
T 1a5t_A           92 AVREVTEKLNEHARLGGAKVVWVT-DAALLTDAAANALLK---T--L---E--EPPAETWFFLATREPERLLATLRSRCR  160 (334)
T ss_dssp             HHHHHHHHTTSCCTTSSCEEEEES-CGGGBCHHHHHHHHH---H--H---T--SCCTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHHHHHHHhhccccCCcEEEEEC-chhhcCHHHHHHHHH---H--h---c--CCCCCeEEEEEeCChHhCcHHHhhcce
Confidence            1223333333222 2457899999 455443344444431   0  1   1  124567888888888889999999999


Q ss_pred             eEEecccCCchHHHHHHHHHHh
Q psy4734         331 MIYFELKCISWTTFFLSYQNEL  352 (367)
Q Consensus       331 ~v~~~~~~~~~~~~~~swl~~~  352 (367)
                      .+.+.+-.   ..-+..||...
T Consensus       161 ~~~~~~~~---~~~~~~~L~~~  179 (334)
T 1a5t_A          161 LHYLAPPP---EQYAVTWLSRE  179 (334)
T ss_dssp             EEECCCCC---HHHHHHHHHHH
T ss_pred             eeeCCCCC---HHHHHHHHHHh
Confidence            99998654   24455677654

>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=97.29  E-value=0.00014  Score=67.62  Aligned_cols=132  Identities=13%  Similarity=0.196  Sum_probs=70.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      .++++|.||||+|||++.+.++..+..              ....+++..+....+.|.   .    ..+.+..++....
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~~l~~--------------~~~~i~~~~~~~~~~~~~---~----~~~~~~~~~~~~~  108 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAKLANA--------------PFIKVEATKFTEVGYVGK---E----VDSIIRDLTDSAG  108 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHTC--------------CEEEEEGGGGSSCCSGGG---S----TTHHHHHHHHTTT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCC--------------CEEEEcchhcccCCccCc---c----HHHHHHHHHHHhh
Confidence            467899999999999999998876621              123344443322222221   0    1122333222110


Q ss_pred             cC--CCCCceEEEEcCCCChHh---------------hhhhhhccCCCCceeecccceeecCCCCeEEEe----cCCCCc
Q psy4734         262 VS--TTPDRKWIMFDGPIDAVW---------------IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFE----CENLEF  320 (367)
Q Consensus       262 ~~--~~~~~~wivfDG~~d~~w---------------ie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE----~~~l~~  320 (367)
                      ..  .......+++| ++|..-               ...|..++++.. +...+|  ..-++++.+|.-    +.+...
T Consensus       109 ~~~~~~~~~~vl~iD-Ei~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~-~~~~~~--~~~~~~~~~i~~~~~~~~~~~~  184 (310)
T 1ofh_A          109 GAIDAVEQNGIVFID-EIDKICKKGEYSGADVSREGVQRDLLPLVEGST-VSTKHG--MVKTDHILFIASGAFQVARPSD  184 (310)
T ss_dssp             TCHHHHHHHCEEEEE-CGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCE-EEETTE--EEECTTCEEEEEECCSSSCGGG
T ss_pred             HHHhhccCCCEEEEE-ChhhcCccccccccchhHHHHHHHHHHHhcCCe-Eecccc--cccCCcEEEEEcCCcccCCccc
Confidence            00  00124688999 443332               334445555433 222333  223456666665    445667


Q ss_pred             cCcchhhceee-EEecccC
Q psy4734         321 ASPATVSRVGM-IYFELKC  338 (367)
Q Consensus       321 asPatvsRcg~-v~~~~~~  338 (367)
                      ..|+..+||.+ +++.+-.
T Consensus       185 l~~~l~~R~~~~i~~~~~~  203 (310)
T 1ofh_A          185 LIPELQGRLPIRVELTALS  203 (310)
T ss_dssp             SCHHHHHTCCEEEECCCCC
T ss_pred             CCHHHHhhCCceEEcCCcC
Confidence            88999999975 7777654

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.21  E-value=0.00028  Score=59.91  Aligned_cols=27  Identities=26%  Similarity=0.417  Sum_probs=22.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ...+++.||+|+|||++++.++..+..
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            356889999999999999998887653

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=97.14  E-value=0.0024  Score=56.00  Aligned_cols=150  Identities=13%  Similarity=0.071  Sum_probs=76.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      +.+++.||+|+|||++.+.+++.+..-..... ...........+..  ....++++ ++...... ...+..+++.+..
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~  120 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKGLNCETGITA-TPCGVCDNCREIEQ--GRFVDLIE-IDAASRTK-VEDTRDLLDNVQY  120 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS-SCCSCSHHHHHHHT--TCCSSEEE-EETTCGGG-HHHHHHHHHSCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC-CCCcccHHHHHHhc--cCCcceEE-ecCccccc-HHHHHHHHHHhhh
Confidence            35788999999999999988876642110000 00000000000000  00111221 11111111 1123334443322


Q ss_pred             C-CCCCceEEEEcCC--CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccCC
Q psy4734         263 S-TTPDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCI  339 (367)
Q Consensus       263 ~-~~~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~~  339 (367)
                      . ....+..+|+|..  ++....+.|-..+++             .++++.+|+-+.+.....|+..+||-.+.+.+-.-
T Consensus       121 ~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~-------------~~~~~~~i~~t~~~~~~~~~l~~r~~~i~l~~l~~  187 (250)
T 1njg_A          121 APARGRFKVYLIDEVHMLSRHSFNALLKTLEE-------------PPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDV  187 (250)
T ss_dssp             SCSSSSSEEEEEETGGGSCHHHHHHHHHHHHS-------------CCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCH
T ss_pred             chhcCCceEEEEECcccccHHHHHHHHHHHhc-------------CCCceEEEEEeCChHhCCHHHHHHhhhccCCCCCH
Confidence            2 2334689999943  455555555555543             14566778877777778889999999999887532


Q ss_pred             -chHHHHHHHHH
Q psy4734         340 -SWTTFFLSYQN  350 (367)
Q Consensus       340 -~~~~~~~swl~  350 (367)
                       ....++...+.
T Consensus       188 ~e~~~~l~~~~~  199 (250)
T 1njg_A          188 EQIRHQLEHILN  199 (250)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence             23444444443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.12  E-value=0.0012  Score=62.99  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=22.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ++++|.||||+|||++.+.++..+.
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~l~   95 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQALG   95 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5799999999999999999888764

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=97.09  E-value=0.0021  Score=59.56  Aligned_cols=118  Identities=19%  Similarity=0.220  Sum_probs=69.1

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh-c
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA-V  262 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~-~  262 (367)
                      .++|.||+|+|||++.+.+++.+..-..         ...+..+|+....     | .    ..     +...++... .
T Consensus        40 ~~ll~G~~G~GKt~la~~l~~~l~~~~~---------~~~~~~~~~~~~~-----~-~----~~-----~~~~~~~~~~~   95 (319)
T 2chq_A           40 HLLFSGPPGTGKTATAIALARDLFGENW---------RDNFIEMNASDER-----G-I----DV-----VRHKIKEFART   95 (319)
T ss_dssp             CEEEESSSSSSHHHHHHHHHHHHHTTCH---------HHHCEEEETTSTT-----C-T----TT-----SSHHHHHHHHS
T ss_pred             eEEEECcCCcCHHHHHHHHHHHhcCCcc---------cCCeEEEeCcccc-----C-h----HH-----HHHHHHHHHhc
Confidence            3889999999999999999887632110         0111223433211     1 0    01     111222222 1


Q ss_pred             --CCCCCceEEEEcCC--CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         263 --STTPDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       263 --~~~~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                        .....++.+++|..  +...-.+.|..++++             .++++.+|+-+++.....|+..|||..+.+.+-.
T Consensus        96 ~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~-------------~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~  162 (319)
T 2chq_A           96 APIGGAPFKIIFLDEADALTADAQAALRRTMEM-------------YSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVP  162 (319)
T ss_dssp             CCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSS-------------SSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCC
T ss_pred             CCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHh-------------cCCCCeEEEEeCChhhcchHHHhhCeEEEecCCC
Confidence              12345789999931  233333444444433             2456778888888888889999999999997654

>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=97.03  E-value=0.0025  Score=64.84  Aligned_cols=135  Identities=17%  Similarity=0.130  Sum_probs=68.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccceecccccccccchHHHHHHHHhc
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      .++|+||||+||||+.+.++..+..              ....++...+ ...+++|....- -....|-+...+..+  
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~~l~~--------------~~~~i~~~~~~~~~~~~g~~~~~-ig~~~~~~~~~~~~a--  172 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAKSLGR--------------KFVRISLGGVRDESEIRGHRRTY-VGAMPGRIIQGMKKA--  172 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHHHTC--------------EEEEECCCC---------------------CHHHHHHTT--
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCC--------------CeEEEEecccchhhhhhhHHHHH-hccCchHHHHHHHHh--
Confidence            4788999999999999998877621              1223444332 234455432110 011222233333332  


Q ss_pred             CCCCCceEEEEcCCCChH-------hhhhhhhccCCCCceee-cccceeecC-CCCeEEEecCCCCccCcchhhceeeEE
Q psy4734         263 STTPDRKWIMFDGPIDAV-------WIENMNTVLDDNKKLCL-INGEIIKMS-NTMNLIFECENLEFASPATVSRVGMIY  333 (367)
Q Consensus       263 ~~~~~~~wivfDG~~d~~-------wie~lnsvlddn~~l~L-~~ge~i~l~-~~~~~ifE~~~l~~asPatvsRcg~v~  333 (367)
                        ....-.+++| .+|..       -.+.|-.+||+...-.+ ..+....+. .++.+|.-+.......|+..+||-+++
T Consensus       173 --~~~~~vl~lD-Eid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~~~l~~aL~~R~~vi~  249 (543)
T 3m6a_A          173 --GKLNPVFLLD-EIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLATIPGPLRDRMEIIN  249 (543)
T ss_dssp             --CSSSEEEEEE-ESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSSTTTSCHHHHHHEEEEE
T ss_pred             --hccCCEEEEh-hhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCccccCCHHHHhhcceee
Confidence              1222377778 33322       12455566665322111 122222222 567788777778889999999999998


Q ss_pred             ecccC
Q psy4734         334 FELKC  338 (367)
Q Consensus       334 ~~~~~  338 (367)
                      +.+-.
T Consensus       250 ~~~~~  254 (543)
T 3m6a_A          250 IAGYT  254 (543)
T ss_dssp             CCCCC
T ss_pred             eCCCC
Confidence            87643

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=97.00  E-value=0.0034  Score=58.38  Aligned_cols=127  Identities=18%  Similarity=0.189  Sum_probs=71.8

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS  263 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~  263 (367)
                      .++|.||+|+|||++.+.+++.+..-..         ...+..+++....     |         .+- +...+++....
T Consensus        48 ~~ll~G~~G~GKT~la~~l~~~l~~~~~---------~~~~~~~~~~~~~-----~---------~~~-~~~~~~~~~~~  103 (327)
T 1iqp_A           48 HLLFAGPPGVGKTTAALALARELFGENW---------RHNFLELNASDER-----G---------INV-IREKVKEFART  103 (327)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHGGGH---------HHHEEEEETTCHH-----H---------HHT-THHHHHHHHHS
T ss_pred             eEEEECcCCCCHHHHHHHHHHHhcCCcc---------cCceEEeeccccC-----c---------hHH-HHHHHHHHHhh
Confidence            3889999999999999999887642211         0112233433210     0         011 11122222211


Q ss_pred             ---CCCCceEEEEcCC--CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         264 ---TTPDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       264 ---~~~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                         ....++.+|+|..  ++..-.+.|..++++             .++++++|+-+++.....|+..|||..+.+.+-.
T Consensus       104 ~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~-------------~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~  170 (327)
T 1iqp_A          104 KPIGGASFKIIFLDEADALTQDAQQALRRTMEM-------------FSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLR  170 (327)
T ss_dssp             CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHH-------------TTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCC
T ss_pred             CCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHh-------------cCCCCeEEEEeCCccccCHHHHhhCcEEEecCCC
Confidence               1145789999931  233334444444432             1456678887777777889999999999988743


Q ss_pred             CchHHHHHHHHH
Q psy4734         339 ISWTTFFLSYQN  350 (367)
Q Consensus       339 ~~~~~~~~swl~  350 (367)
                         ..-+..|+.
T Consensus       171 ---~~~~~~~l~  179 (327)
T 1iqp_A          171 ---DEDIAKRLR  179 (327)
T ss_dssp             ---HHHHHHHHH
T ss_pred             ---HHHHHHHHH
Confidence               233344554

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.00  E-value=0.0021  Score=60.73  Aligned_cols=123  Identities=15%  Similarity=0.117  Sum_probs=69.5

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH---
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM---  260 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~---  260 (367)
                      .+++.||+|+|||++.+.++..+..-...        .+.+..++|......          ..+.+- +..+....   
T Consensus        60 ~~ll~G~~G~GKT~la~~la~~l~~~~~~--------~~~~~~~~~~~~~~~----------~~~~~~-~~~~~~~~~~~  120 (353)
T 1sxj_D           60 HMLFYGPPGTGKTSTILALTKELYGPDLM--------KSRILELNASDERGI----------SIVREK-VKNFARLTVSK  120 (353)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHHHHHHH--------TTSEEEECSSSCCCH----------HHHTTH-HHHHHHSCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCccc--------ccceEEEccccccch----------HHHHHH-HHHHhhhcccc
Confidence            38899999999999999999887532111        122334566543110          011110 10110000   


Q ss_pred             ------hcCCCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeE
Q psy4734         261 ------AVSTTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMI  332 (367)
Q Consensus       261 ------~~~~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v  332 (367)
                            ........+.+++|-  .+++...+.|..++++.             +.+.++|+-+++.....|+..+||..+
T Consensus       121 ~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~-------------~~~~~~il~~~~~~~l~~~l~sR~~~i  187 (353)
T 1sxj_D          121 PSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETY-------------SGVTRFCLICNYVTRIIDPLASQCSKF  187 (353)
T ss_dssp             CCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHT-------------TTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             cchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhc-------------CCCceEEEEeCchhhCcchhhccCceE
Confidence                  011223557999993  23333444444444432             245667777777778889999999988


Q ss_pred             EecccC
Q psy4734         333 YFELKC  338 (367)
Q Consensus       333 ~~~~~~  338 (367)
                      .+.+-.
T Consensus       188 ~~~~~~  193 (353)
T 1sxj_D          188 RFKALD  193 (353)
T ss_dssp             ECCCCC
T ss_pred             EeCCCC
Confidence            887643

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.97  E-value=0.001  Score=67.08  Aligned_cols=140  Identities=10%  Similarity=0.182  Sum_probs=76.0

Q ss_pred             HHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHH
Q psy4734         178 IFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTF  257 (367)
Q Consensus       178 ~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~  257 (367)
                      .......+++.||||+|||++.+.++..+..          ..  ....++....+..+++|.++... .-..|.+..  
T Consensus        37 al~~~~~VLL~GpPGtGKT~LAraLa~~l~~----------~~--~f~~~~~~~~t~~dL~G~~~~~~-~~~~g~~~~--  101 (500)
T 3nbx_X           37 AALSGESVFLLGPPGIAKSLIARRLKFAFQN----------AR--AFEYLMTRFSTPEEVFGPLSIQA-LKDEGRYER--  101 (500)
T ss_dssp             HHHHTCEEEEECCSSSSHHHHHHHGGGGBSS----------CC--EEEEECCTTCCHHHHHCCBC-----------CB--
T ss_pred             HHhcCCeeEeecCchHHHHHHHHHHHHHHhh----------hh--HHHHHHHhcCCHHHhcCcccHHH-HhhchhHHh--
Confidence            3455678999999999999998887764411          01  12233444446688888653211 001111100  


Q ss_pred             HHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCc---cCcchhhceee-
Q psy4734         258 REMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEF---ASPATVSRVGM-  331 (367)
Q Consensus       258 r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~---asPatvsRcg~-  331 (367)
                        +....-....++++|  +..++.-...|-.++++. .++. .|....++..+ +|+-+..+..   ..+|..+|..+ 
T Consensus       102 --~~~g~l~~~~IL~IDEI~r~~~~~q~~LL~~lee~-~v~i-~G~~~~~~~~~-iI~ATN~lpe~~~~~~aLldRF~~~  176 (500)
T 3nbx_X          102 --LTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINER-QFRN-GAHVEKIPMRL-LVAASNELPEADSSLEALYDRMLIR  176 (500)
T ss_dssp             --CCTTSGGGCSEEEEESGGGCCHHHHHHHHHHHHSS-EEEC-SSSEEECCCCE-EEEEESSCCCTTCTTHHHHTTCCEE
T ss_pred             --hhccCCCcceeeeHHhHhhhcHHHHHHHHHHHHHH-hccC-CCCcCCcchhh-hhhccccCCCccccHHHHHHHHHHH
Confidence              000000124689999  334555555666666554 3344 56666666553 4666654433   33589999866 


Q ss_pred             EEeccc
Q psy4734         332 IYFELK  337 (367)
Q Consensus       332 v~~~~~  337 (367)
                      +++++.
T Consensus       177 i~v~~p  182 (500)
T 3nbx_X          177 LWLDKV  182 (500)
T ss_dssp             EECCSC
T ss_pred             HHHHHh
Confidence            566543

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.97  E-value=0.0039  Score=57.88  Aligned_cols=126  Identities=17%  Similarity=0.201  Sum_probs=72.4

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc--
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV--  262 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~--  262 (367)
                      ++|.||+|+|||++.+.+++.+..-..         ...+..+++....     |          -+.+...++....  
T Consensus        45 ~ll~G~~G~GKt~la~~l~~~l~~~~~---------~~~~~~~~~~~~~-----~----------~~~i~~~~~~~~~~~  100 (323)
T 1sxj_B           45 MIISGMPGIGKTTSVHCLAHELLGRSY---------ADGVLELNASDDR-----G----------IDVVRNQIKHFAQKK  100 (323)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHGGGH---------HHHEEEECTTSCC-----S----------HHHHHTHHHHHHHBC
T ss_pred             EEEECcCCCCHHHHHHHHHHHhcCCcc---------cCCEEEecCcccc-----C----------hHHHHHHHHHHHhcc
Confidence            889999999999999999887642111         1112334433210     0          0112223333321  


Q ss_pred             -CC-CCCceEEEEcCCCC---hHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEeccc
Q psy4734         263 -ST-TPDRKWIMFDGPID---AVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       263 -~~-~~~~~wivfDG~~d---~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~  337 (367)
                       .- ...++.+|+|. +|   ..-.+.|...+++             .+++..+|+-+.+.....|+..|||..+.+.+-
T Consensus       101 ~~~~~~~~~viiiDe-~~~l~~~~~~~L~~~le~-------------~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~  166 (323)
T 1sxj_B          101 LHLPPGKHKIVILDE-ADSMTAGAQQALRRTMEL-------------YSNSTRFAFACNQSNKIIEPLQSQCAILRYSKL  166 (323)
T ss_dssp             CCCCTTCCEEEEEES-GGGSCHHHHHTTHHHHHH-------------TTTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             ccCCCCCceEEEEEC-cccCCHHHHHHHHHHHhc-------------cCCCceEEEEeCChhhchhHHHhhceEEeecCC
Confidence             11 23478999993 33   2333333333332             245677888787778888999999999999875


Q ss_pred             CCchHHHHHHHHHH
Q psy4734         338 CISWTTFFLSYQNE  351 (367)
Q Consensus       338 ~~~~~~~~~swl~~  351 (367)
                      .-   .-+..|+..
T Consensus       167 ~~---~~~~~~l~~  177 (323)
T 1sxj_B          167 SD---EDVLKRLLQ  177 (323)
T ss_dssp             CH---HHHHHHHHH
T ss_pred             CH---HHHHHHHHH
Confidence            42   333445543

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=96.97  E-value=0.00046  Score=71.06  Aligned_cols=126  Identities=13%  Similarity=0.166  Sum_probs=78.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcccccccee--ccccc--ccccchHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEF--DSASH--EWRDGILAKTFRE  259 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~--d~~~~--~W~dGil~~~~r~  259 (367)
                      .++++||||+|||++++.+++.+..              ..+. .....+...+.|..  +..++  .+..|.+..+   
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r--------------~~~~-~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~~A---  390 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPR--------------AVYT-TGKGSTAAGLTAAVVREKGTGEYYLEAGALVLA---  390 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSC--------------EECC-CTTCSTTTTSEEECSSGGGTSSCSEEECHHHHH---
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCC--------------ceec-CCCccccccccceeeeccccccccccCCeeEec---
Confidence            5899999999999998876654311              0010 11112333444433  12223  3456665433   


Q ss_pred             HhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC-------------ccCcc
Q psy4734         260 MAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE-------------FASPA  324 (367)
Q Consensus       260 ~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~-------------~asPa  324 (367)
                             +...+++|  +.+++.-...|..+|++...-....|....++..+++|.-+....             ..+||
T Consensus       391 -------~~gil~IDEid~l~~~~q~~Ll~~le~~~i~i~~~g~~~~~~~~~~vIaatNp~~G~~~~~~~~~~ni~l~~a  463 (595)
T 3f9v_A          391 -------DGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFGRYISERPVSDNINLPPT  463 (595)
T ss_dssp             -------SSSEECCTTTTCCCSHHHHHHHHHHHSSSEEEESSSSEEEECCCCEEEEEECCTTCCSCTTSCSCTTTCSCSS
T ss_pred             -------CCCcEEeehhhhCCHhHhhhhHHHHhCCEEEEecCCcEEEecCceEEEEEcCCcCCccCcccCchhccCCCHH
Confidence                   12477788  334555667777788766554446688888998988887776554             78999


Q ss_pred             hhhceeeEEe
Q psy4734         325 TVSRVGMIYF  334 (367)
Q Consensus       325 tvsRcg~v~~  334 (367)
                      ..+|+.++++
T Consensus       464 Ll~RFDl~~~  473 (595)
T 3f9v_A          464 ILSRFDLIFI  473 (595)
T ss_dssp             SGGGCSCCEE
T ss_pred             HHhhCeEEEE
Confidence            9999976554

>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=96.95  E-value=0.0026  Score=60.30  Aligned_cols=70  Identities=10%  Similarity=0.147  Sum_probs=45.7

Q ss_pred             CCceEEEEcCC--CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccCCchHH
Q psy4734         266 PDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISWTT  343 (367)
Q Consensus       266 ~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~~~~~~  343 (367)
                      ..++.+++|-+  +|+.-.+.|-..+.+             .+++..+|+=+++....-|+..|||-.+.+.+-..   .
T Consensus       133 ~~~~vlilDE~~~L~~~~~~~L~~~le~-------------~~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~---~  196 (354)
T 1sxj_E          133 HRYKCVIINEANSLTKDAQAALRRTMEK-------------YSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSD---S  196 (354)
T ss_dssp             -CCEEEEEECTTSSCHHHHHHHHHHHHH-------------STTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCH---H
T ss_pred             CCCeEEEEeCccccCHHHHHHHHHHHHh-------------hcCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCH---H
Confidence            36789999954  344444444433322             23467788888888889999999998888876542   3


Q ss_pred             HHHHHHHH
Q psy4734         344 FFLSYQNE  351 (367)
Q Consensus       344 ~~~swl~~  351 (367)
                      -+..|+..
T Consensus       197 ~~~~~l~~  204 (354)
T 1sxj_E          197 EISTILSD  204 (354)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            34455544

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.90  E-value=0.0011  Score=70.13  Aligned_cols=140  Identities=19%  Similarity=0.208  Sum_probs=80.1

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS  263 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~  263 (367)
                      .++|.||||+|||++.+.++..+..-         +.+  ...+|...     +.+....     ..|.++.++|+.   
T Consensus       523 ~~Ll~Gp~GtGKT~lA~ala~~l~~~---------~~~--~i~i~~s~-----~~~~~~~-----~~~~l~~~~~~~---  578 (758)
T 3pxi_A          523 SFIFLGPTGVGKTELARALAESIFGD---------EES--MIRIDMSE-----YMEKHST-----SGGQLTEKVRRK---  578 (758)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHSC---------TTC--EEEEEGGG-----GCSSCCC-----C---CHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCC---------Ccc--eEEEechh-----ccccccc-----ccchhhHHHHhC---
Confidence            48899999999999999998876311         112  22333322     2222111     156667777653   


Q ss_pred             CCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC------------CccCcchhhce
Q psy4734         264 TTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL------------EFASPATVSRV  329 (367)
Q Consensus       264 ~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l------------~~asPatvsRc  329 (367)
                         ....++||  +..++.....|..+||+. .++...|..+. ..++++|+-+..-            ....|+..+||
T Consensus       579 ---~~~vl~lDEi~~~~~~~~~~Ll~~le~g-~~~~~~g~~~~-~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~~Rl  653 (758)
T 3pxi_A          579 ---PYSVVLLDAIEKAHPDVFNILLQVLEDG-RLTDSKGRTVD-FRNTILIMTSNVGASEKDKVMGELKRAFRPEFINRI  653 (758)
T ss_dssp             ---SSSEEEEECGGGSCHHHHHHHHHHHHHS-BCC-----CCB-CTTCEEEEEESSSTTCCHHHHHHHHHHSCHHHHTTS
T ss_pred             ---CCeEEEEeCccccCHHHHHHHHHHhccC-eEEcCCCCEec-cCCeEEEEeCCCChhhHHHHHHHHHhhCCHHHHhhC
Confidence               34589999  456777778888888874 45555565444 4567777766521            12679999999


Q ss_pred             -eeEEecccCC-chHHHHHHHHHHh
Q psy4734         330 -GMIYFELKCI-SWTTFFLSYQNEL  352 (367)
Q Consensus       330 -g~v~~~~~~~-~~~~~~~swl~~~  352 (367)
                       .+|++.|-.- .-..++...+..+
T Consensus       654 ~~~i~~~~l~~~~~~~i~~~~l~~~  678 (758)
T 3pxi_A          654 DEIIVFHSLEKKHLTEIVSLMSDQL  678 (758)
T ss_dssp             SEEEECC--CHHHHHHHHHHHHHHH
T ss_pred             CeEEecCCCCHHHHHHHHHHHHHHH
Confidence             6777776532 1333444444443

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=96.88  E-value=0.0014  Score=62.73  Aligned_cols=144  Identities=15%  Similarity=0.228  Sum_probs=72.1

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccc-eeEEEEeCCCCCc----------cccccceeccccccc-cc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEF-KTGYKIINPKSIT----------MGQLYGEFDSASHEW-RD  250 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~-~v~~~~inpka~t----------~~~l~G~~d~~~~~W-~d  250 (367)
                      +.+++.||+|+|||++.+.++..+........    .. ......+|+....          ..++.|.--+ .... ..
T Consensus        46 ~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~----~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~-~~~~~~~  120 (384)
T 2qby_B           46 FSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDE----EYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVP-KHGINLG  120 (384)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHHHHHHHSS----SSTTCEEEEEEHHHHCSCHHHHHHHHHHHHHCSCCC-SSSSCTH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHHhhhhc----CCCCceEEEEECccCCCCHHHHHHHHHHHhcCCCCC-CCCCCHH
Confidence            45889999999999999998877654321000    00 1223334432221          2222222111 1111 12


Q ss_pred             chHHHHHHHHhcCCCCCceEEEEcCCCChHh----hhh-hhhccCCCCceeecccceeecCCCCeEEEecCCC---CccC
Q psy4734         251 GILAKTFREMAVSTTPDRKWIMFDGPIDAVW----IEN-MNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL---EFAS  322 (367)
Q Consensus       251 Gil~~~~r~~~~~~~~~~~wivfDG~~d~~w----ie~-lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l---~~as  322 (367)
                      .++..+.....    ..+..||+| ++|..-    .+. +..++...              .++.+|+=+.+.   ....
T Consensus       121 ~~~~~l~~~l~----~~~~vlilD-Ei~~l~~~~~~~~~l~~l~~~~--------------~~~~iI~~t~~~~~~~~l~  181 (384)
T 2qby_B          121 EYIDKIKNGTR----NIRAIIYLD-EVDTLVKRRGGDIVLYQLLRSD--------------ANISVIMISNDINVRDYME  181 (384)
T ss_dssp             HHHHHHHHHHS----SSCEEEEEE-TTHHHHHSTTSHHHHHHHHTSS--------------SCEEEEEECSSTTTTTTSC
T ss_pred             HHHHHHHHHhc----cCCCEEEEE-CHHHhccCCCCceeHHHHhcCC--------------cceEEEEEECCCchHhhhC
Confidence            23333333331    112288999 444332    222 33333221              566677766665   5678


Q ss_pred             cchhhc-eeeEEecccCC-chHHHHHHHHH
Q psy4734         323 PATVSR-VGMIYFELKCI-SWTTFFLSYQN  350 (367)
Q Consensus       323 PatvsR-cg~v~~~~~~~-~~~~~~~swl~  350 (367)
                      |+..+| |..+++.+-.. ....++...+.
T Consensus       182 ~~l~sr~~~~i~l~~l~~~~~~~il~~~~~  211 (384)
T 2qby_B          182 PRVLSSLGPSVIFKPYDAEQLKFILSKYAE  211 (384)
T ss_dssp             HHHHHTCCCEEEECCCCHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCeEEECCCCHHHHHHHHHHHHH
Confidence            888999 46777776532 23444444443

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.88  E-value=0.0021  Score=64.10  Aligned_cols=121  Identities=19%  Similarity=0.186  Sum_probs=62.7

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      ...++|+||||+|||++.+.++..+..-..    +.......+..++..    ...-|       ++. ..+..++..+.
T Consensus       201 ~~~~LL~G~pG~GKT~la~~la~~l~~~~~----p~~l~~~~~~~l~~~----~~~~g-------~~e-~~~~~~~~~~~  264 (468)
T 3pxg_A          201 KNNPVLIGEPGVGKTAIAEGLAQQIINNEV----PEILRDKRVMTLDMG----TKYRG-------EFE-DRLKKVMDEIR  264 (468)
T ss_dssp             SCEEEEESCTTTTTHHHHHHHHHHHHSSCS----CTTTSSCCEECC---------------------C-TTHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHHHhCCC----ChhhcCCeEEEeeCC----ccccc-------hHH-HHHHHHHHHHH
Confidence            356889999999999999999887643110    000001122222222    11112       222 22344555443


Q ss_pred             cCCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC-----ccCcchhhceeeEEecc
Q psy4734         262 VSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE-----FASPATVSRVGMIYFEL  336 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~-----~asPatvsRcg~v~~~~  336 (367)
                      .   ..+..+++||..|..  ..|..+|.        .|       .+++|.-++.-.     ...|+..+||..|++++
T Consensus       265 ~---~~~~iLfiD~~~~a~--~~L~~~L~--------~g-------~v~vI~at~~~e~~~~~~~~~al~~Rf~~i~v~~  324 (468)
T 3pxg_A          265 Q---AGNIILFIDAAIDAS--NILKPSLA--------RG-------ELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQ  324 (468)
T ss_dssp             T---CCCCEEEECC----------CCCTT--------SS-------SCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCC
T ss_pred             h---cCCeEEEEeCchhHH--HHHHHhhc--------CC-------CEEEEecCCHHHHHHHhhcCHHHHHhCccceeCC
Confidence            2   245688889665532  22333332        22       466777766554     46799999999999986


Q ss_pred             cC
Q psy4734         337 KC  338 (367)
Q Consensus       337 ~~  338 (367)
                      -.
T Consensus       325 p~  326 (468)
T 3pxg_A          325 PS  326 (468)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=96.87  E-value=0.00059  Score=62.29  Aligned_cols=151  Identities=11%  Similarity=0.121  Sum_probs=82.8

Q ss_pred             HhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecc---cccccccc
Q psy4734         179 FEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDS---ASHEWRDG  251 (367)
Q Consensus       179 ~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~---~~~~W~dG  251 (367)
                      ......+++.||+|+|||++.+.++......           ......+|..+++    ..++||....   .......|
T Consensus        26 ~~~~~~vll~G~~GtGKt~la~~i~~~~~~~-----------~~~~~~v~~~~~~~~~~~~~l~g~~~~~~~g~~~~~~~   94 (265)
T 2bjv_A           26 APLDKPVLIIGERGTGKELIASRLHYLSSRW-----------QGPFISLNCAALNENLLDSELFGHEAGAFTGAQKRHPG   94 (265)
T ss_dssp             TTSCSCEEEECCTTSCHHHHHHHHHHTSTTT-----------TSCEEEEEGGGSCHHHHHHHHHCCC---------CCCC
T ss_pred             hCCCCCEEEECCCCCcHHHHHHHHHHhcCcc-----------CCCeEEEecCCCChhHHHHHhcCCcccccccccccccc
Confidence            3455789999999999999988877543211           1123345655553    2345664211   00112334


Q ss_pred             hHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC-------CccC
Q psy4734         252 ILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL-------EFAS  322 (367)
Q Consensus       252 il~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l-------~~as  322 (367)
                      .+..    +      ....+++|  +.++..-.+.|..++++....  ..|+....+.++++|+-++.-       ....
T Consensus        95 ~l~~----a------~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~--~~g~~~~~~~~~~iI~atn~~~~~~~~~~~~~  162 (265)
T 2bjv_A           95 RFER----A------DGGTLFLDELATAPMMVQEKLLRVIEYGELE--RVGGSQPLQVNVRLVCATNADLPAMVNEGTFR  162 (265)
T ss_dssp             HHHH----T------TTSEEEEESGGGSCHHHHHHHHHHHHHCEEC--CCCC--CEECCCEEEEEESSCHHHHHHHTSSC
T ss_pred             hhhh----c------CCcEEEEechHhcCHHHHHHHHHHHHhCCee--cCCCcccccCCeEEEEecCcCHHHHHHcCCcc
Confidence            4322    1      23588999  344555556666667654332  234444456678888876642       1356


Q ss_pred             cchhhceeeEEecccCCc-----hHHHHHHHHHHh
Q psy4734         323 PATVSRVGMIYFELKCIS-----WTTFFLSYQNEL  352 (367)
Q Consensus       323 PatvsRcg~v~~~~~~~~-----~~~~~~swl~~~  352 (367)
                      |+..+|+..+.+.-..+.     -..++..+++..
T Consensus       163 ~~L~~Rl~~~~i~lp~L~~R~~di~~l~~~~l~~~  197 (265)
T 2bjv_A          163 ADLLDALAFDVVQLPPLRERESDIMLMAEYFAIQM  197 (265)
T ss_dssp             HHHHHHHCSEEEECCCGGGCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCcEEeCCChhhhhHHHHHHHHHHHHHH
Confidence            899999975444332222     334556666543

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.83  E-value=0.0024  Score=68.43  Aligned_cols=148  Identities=20%  Similarity=0.250  Sum_probs=83.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC----ccccccceeccccccccc-chHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI----TMGQLYGEFDSASHEWRD-GILAKTF  257 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~----t~~~l~G~~d~~~~~W~d-Gil~~~~  257 (367)
                      ..++|.||+|+|||++.+.++..+..-.         .+  ...+|...+    ...+++|.. +.-..+.. |.++..+
T Consensus       589 ~~vLl~Gp~GtGKT~lA~~la~~~~~~~---------~~--~i~i~~~~~~~~~~~s~l~g~~-~~~~G~~~~g~l~~~~  656 (854)
T 1qvr_A          589 GSFLFLGPTGVGKTELAKTLAATLFDTE---------EA--MIRIDMTEYMEKHAVSRLIGAP-PGYVGYEEGGQLTEAV  656 (854)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHHHHSSG---------GG--EEEECTTTCCSSGGGGGC---------------CHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCC---------Cc--EEEEechhccchhHHHHHcCCC-CCCcCccccchHHHHH
Confidence            3588999999999999999888764211         11  233554443    356677642 11123333 7787777


Q ss_pred             HHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC-----------------
Q psy4734         258 REMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL-----------------  318 (367)
Q Consensus       258 r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l-----------------  318 (367)
                      ++.      ....++||  +.+++.....|..+||+.+ ++-+.|..+.+. ++.+|+ ++|.                 
T Consensus       657 ~~~------~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~-~~~~~g~~vd~~-~~iiI~-tsn~~~~~~~~~~~~~~~~~~  727 (854)
T 1qvr_A          657 RRR------PYSVILFDEIEKAHPDVFNILLQILDDGR-LTDSHGRTVDFR-NTVIIL-TSNLGSPLILEGLQKGWPYER  727 (854)
T ss_dssp             HHC------SSEEEEESSGGGSCHHHHHHHHHHHTTTE-ECCSSSCCEECT-TEEEEE-ECCTTHHHHHHHHHTTCCHHH
T ss_pred             HhC------CCeEEEEecccccCHHHHHHHHHHhccCc-eECCCCCEeccC-CeEEEE-ecCcChHHHhhhcccccchHH
Confidence            753      24689999  4466777777778887754 444555555542 333554 3343                 


Q ss_pred             ----------CccCcchhhce-eeEEecccCC-chHHHHHHHHHH
Q psy4734         319 ----------EFASPATVSRV-GMIYFELKCI-SWTTFFLSYQNE  351 (367)
Q Consensus       319 ----------~~asPatvsRc-g~v~~~~~~~-~~~~~~~swl~~  351 (367)
                                ....|+..+|| .++.+.|-.- .-..++...++.
T Consensus       728 l~~~v~~~~~~~f~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~  772 (854)
T 1qvr_A          728 IRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSY  772 (854)
T ss_dssp             HHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHH
Confidence                      24579999999 5556655321 123344444443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.83  E-value=0.0024  Score=63.34  Aligned_cols=123  Identities=13%  Similarity=0.135  Sum_probs=65.1

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      ++++|.||||+|||++.+.++..++              .....++......++            ..+++..+..... 
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~~~--------------~~f~~l~a~~~~~~~------------ir~~~~~a~~~~~-  103 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARYAN--------------ADVERISAVTSGVKE------------IREAIERARQNRN-  103 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHTT--------------CEEEEEETTTCCHHH------------HHHHHHHHHHHHH-
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHhC--------------CCeEEEEeccCCHHH------------HHHHHHHHHHhhh-
Confidence            4689999999999999999887642              112223322111111            1122222222211 


Q ss_pred             CCCCCceEEEEcCCCChH---hhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-C-CccCcchhhceeeEEeccc
Q psy4734         263 STTPDRKWIMFDGPIDAV---WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-L-EFASPATVSRVGMIYFELK  337 (367)
Q Consensus       263 ~~~~~~~wivfDG~~d~~---wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-l-~~asPatvsRcg~v~~~~~  337 (367)
                        ......+++| ++|..   -.+.|..++++               ..+.+|+.++. . ....|+..|||.++.+.+-
T Consensus       104 --~~~~~iLfID-EI~~l~~~~q~~LL~~le~---------------~~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l  165 (447)
T 3pvs_A          104 --AGRRTILFVD-EVHRFNKSQQDAFLPHIED---------------GTITFIGATTENPSFELNSALLSRARVYLLKSL  165 (447)
T ss_dssp             --TTCCEEEEEE-TTTCC------CCHHHHHT---------------TSCEEEEEESSCGGGSSCHHHHTTEEEEECCCC
T ss_pred             --cCCCcEEEEe-ChhhhCHHHHHHHHHHHhc---------------CceEEEecCCCCcccccCHHHhCceeEEeeCCc
Confidence              2346788999 33322   22333333332               23556666543 2 3567999999999998765


Q ss_pred             CC-chHHHHHHHHH
Q psy4734         338 CI-SWTTFFLSYQN  350 (367)
Q Consensus       338 ~~-~~~~~~~swl~  350 (367)
                      .- ....++...+.
T Consensus       166 ~~edi~~il~~~l~  179 (447)
T 3pvs_A          166 STEDIEQVLTQAME  179 (447)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            42 13334444443

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=96.81  E-value=0.007  Score=57.47  Aligned_cols=147  Identities=13%  Similarity=0.069  Sum_probs=74.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      |.++|.||+|+|||++.+.+++.+........ ..-........+..  -...++++ ++.......+ .+..++..+..
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~-~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~~~~-~~~~l~~~~~~  113 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAKGLNCETGITA-TPCGVCDNCREIEQ--GRFVDLIE-IDAASRTKVE-DTRDLLDNVQY  113 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHHHHSCTTCSCS-SCCSSSHHHHHHHT--SCCSSCEE-EETTCSCCSS-CHHHHHHHTTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC-CCCcccHHHHHHhc--cCCCceEE-ecccccCCHH-HHHHHHHHHhh
Confidence            45789999999999999999877642110000 00000000000000  00011111 1221111111 23344444433


Q ss_pred             CC-CCCceEEEEcCC--CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccCC
Q psy4734         263 ST-TPDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCI  339 (367)
Q Consensus       263 ~~-~~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~~  339 (367)
                      .. ...++.+|+|.-  ++..-.+.|-..+++             .++++.+|+-+++.....|+..|||..+.+.+-. 
T Consensus       114 ~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~-------------~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~~~l~-  179 (373)
T 1jr3_A          114 APARGRFKVYLIDEVHMLSRHSFNALLKTLEE-------------PPEHVKFLLATTDPQKLPVTILSRCLQFHLKALD-  179 (373)
T ss_dssp             CCSSSSSEEEEEECGGGSCHHHHHHHHHHHHS-------------CCSSEEEEEEESCGGGSCHHHHTTSEEEECCCCC-
T ss_pred             ccccCCeEEEEEECcchhcHHHHHHHHHHHhc-------------CCCceEEEEEeCChHhCcHHHHhheeEeeCCCCC-
Confidence            22 345689999931  233333334333332             3556778888888888889999999999988654 


Q ss_pred             chHHHHHHHHH
Q psy4734         340 SWTTFFLSYQN  350 (367)
Q Consensus       340 ~~~~~~~swl~  350 (367)
                        ..-+..|+.
T Consensus       180 --~~~~~~~l~  188 (373)
T 1jr3_A          180 --VEQIRHQLE  188 (373)
T ss_dssp             --HHHHHHHHH
T ss_pred             --HHHHHHHHH
Confidence              233445554

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.81  E-value=0.00092  Score=61.49  Aligned_cols=134  Identities=15%  Similarity=0.184  Sum_probs=71.4

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ...+++|.||+|+|||++.+.++..++              .....+++     .++++.+-..    ..+.+..++..+
T Consensus        50 ~~~~~ll~G~~GtGKT~la~~la~~~~--------------~~~~~v~~-----~~~~~~~~~~----~~~~~~~~~~~~  106 (285)
T 3h4m_A           50 PPKGILLYGPPGTGKTLLAKAVATETN--------------ATFIRVVG-----SELVKKFIGE----GASLVKDIFKLA  106 (285)
T ss_dssp             CCSEEEEESSSSSSHHHHHHHHHHHTT--------------CEEEEEEG-----GGGCCCSTTH----HHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhC--------------CCEEEEeh-----HHHHHhccch----HHHHHHHHHHHH
Confidence            456799999999999999998876541              12222322     2333322111    112233333333


Q ss_pred             hcCCCCCceEEEEcCCCChH--------------hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchh
Q psy4734         261 AVSTTPDRKWIMFDGPIDAV--------------WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATV  326 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~--------------wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatv  326 (367)
                      ..   ..+..+++| ++|..              ..+.+..+++.        .+.+..+.++.+|.-+.......|+..
T Consensus       107 ~~---~~~~vl~iD-Eid~l~~~~~~~~~~~~~~~~~~l~~ll~~--------~~~~~~~~~~~vI~ttn~~~~l~~~l~  174 (285)
T 3h4m_A          107 KE---KAPSIIFID-EIDAIAAKRTDALTGGDREVQRTLMQLLAE--------MDGFDARGDVKIIGATNRPDILDPAIL  174 (285)
T ss_dssp             HH---TCSEEEEEE-TTHHHHBCCSSSCCGGGGHHHHHHHHHHHH--------HHTTCSSSSEEEEEECSCGGGBCHHHH
T ss_pred             HH---cCCeEEEEE-CHHHhcccCccccCCccHHHHHHHHHHHHH--------hhCCCCCCCEEEEEeCCCchhcCHHHc
Confidence            22   235789999 55433              23334433321        011122345667777777777888988


Q ss_pred             h--cee-eEEecccCC-chHHHHHHHH
Q psy4734         327 S--RVG-MIYFELKCI-SWTTFFLSYQ  349 (367)
Q Consensus       327 s--Rcg-~v~~~~~~~-~~~~~~~swl  349 (367)
                      +  |+. .+++.+-+. ....++...+
T Consensus       175 ~~~Rf~~~i~~~~p~~~~r~~il~~~~  201 (285)
T 3h4m_A          175 RPGRFDRIIEVPAPDEKGRLEILKIHT  201 (285)
T ss_dssp             STTSEEEEEECCCCCHHHHHHHHHHHH
T ss_pred             CCCcCCeEEEECCCCHHHHHHHHHHHH
Confidence            8  887 455654432 2334444443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.79  E-value=0.00075  Score=65.51  Aligned_cols=139  Identities=17%  Similarity=0.179  Sum_probs=70.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      .++++|.||+|+|||++.+.++..++              ..+..+++..+. +.+.|..        .+.+..+++.+.
T Consensus       148 ~~~vLL~GppGtGKT~la~aia~~~~--------------~~~~~v~~~~l~-~~~~g~~--------~~~~~~~~~~a~  204 (389)
T 3vfd_A          148 ARGLLLFGPPGNGKTMLAKAVAAESN--------------ATFFNISAASLT-SKYVGEG--------EKLVRALFAVAR  204 (389)
T ss_dssp             CSEEEEESSTTSCHHHHHHHHHHHTT--------------CEEEEECSCCC--------C--------HHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhhc--------------CcEEEeeHHHhh-ccccchH--------HHHHHHHHHHHH
Confidence            46899999999999999988865431              234456665443 1222221        123334444432


Q ss_pred             cCCCCCceEEEEcCCCChHhhhh-------hhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhcee-eEE
Q psy4734         262 VSTTPDRKWIMFDGPIDAVWIEN-------MNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVG-MIY  333 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~d~~wie~-------lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg-~v~  333 (367)
                      .   ..+..|++| ++|......       ...++  +..+..-.|-.-..+..+.+|.-+.....+.|+..+||. .++
T Consensus       205 ~---~~~~il~iD-Eid~l~~~~~~~~~~~~~~~~--~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~  278 (389)
T 3vfd_A          205 E---LQPSIIFID-QVDSLLCERREGEHDASRRLK--TEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRFIKRVY  278 (389)
T ss_dssp             H---SSSEEEEEE-TGGGGC--------CTHHHHH--HHHHHHHHHHC-----CEEEEEEESCGGGCCHHHHTTCCEEEE
T ss_pred             h---cCCeEEEEE-CchhhcccCCCccchHHHHHH--HHHHHHhhcccccCCCCEEEEEecCCchhcCHHHHcCcceEEE
Confidence            2   234688888 554331110       00000  001111111111223456677777777788999999996 688


Q ss_pred             ecccCCc-hHHHHHHHH
Q psy4734         334 FELKCIS-WTTFFLSYQ  349 (367)
Q Consensus       334 ~~~~~~~-~~~~~~swl  349 (367)
                      +..-+.. -..++...+
T Consensus       279 i~~p~~~~r~~il~~~~  295 (389)
T 3vfd_A          279 VSLPNEETRLLLLKNLL  295 (389)
T ss_dssp             CCCCCHHHHHHHHHHHH
T ss_pred             cCCcCHHHHHHHHHHHH
Confidence            8765432 233444443

>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=96.76  E-value=0.00067  Score=65.19  Aligned_cols=135  Identities=16%  Similarity=0.169  Sum_probs=71.1

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ..++++|.||+|+|||++.+.++..++              .....+++     .++++.+-..+    ...+..++..+
T Consensus        83 ~~~~iLL~GppGtGKT~la~ala~~~~--------------~~~~~v~~-----~~l~~~~~g~~----~~~~~~~f~~a  139 (355)
T 2qp9_X           83 PTSGILLYGPPGTGKSYLAKAVATEAN--------------STFFSVSS-----SDLVSKWMGES----EKLVKQLFAMA  139 (355)
T ss_dssp             CCCCEEEECSTTSCHHHHHHHHHHHHT--------------CEEEEEEH-----HHHHSCC---C----HHHHHHHHHHH
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHhC--------------CCEEEeeH-----HHHhhhhcchH----HHHHHHHHHHH
Confidence            356899999999999999998887652              12222332     23332221111    11223333333


Q ss_pred             hcCCCCCceEEEEcCCCChHh--------------hhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchh
Q psy4734         261 AVSTTPDRKWIMFDGPIDAVW--------------IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATV  326 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~w--------------ie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatv  326 (367)
                      .   ...+..|++| ++|..-              ...|-..+|.-          -.-+.++.+|.-+.......|+..
T Consensus       140 ~---~~~~~vl~iD-Eid~l~~~r~~~~~~~~~~~~~~ll~~l~~~----------~~~~~~v~vI~atn~~~~ld~al~  205 (355)
T 2qp9_X          140 R---ENKPSIIFID-QVDALTGTRGEGESEASRRIKTELLVQMNGV----------GNDSQGVLVLGATNIPWQLDSAIR  205 (355)
T ss_dssp             H---HTSSEEEEEE-CGGGGTC------CTHHHHHHHHHHHHHHHC----------C---CCEEEEEEESCGGGSCHHHH
T ss_pred             H---HcCCeEEEEe-chHhhcccCCCCcchHHHHHHHHHHHHhhcc----------cccCCCeEEEeecCCcccCCHHHH
Confidence            2   1345789999 444322              12222222210          011345666666766777889999


Q ss_pred             hce-eeEEecccCCc-hHHHHHHHHHHh
Q psy4734         327 SRV-GMIYFELKCIS-WTTFFLSYQNEL  352 (367)
Q Consensus       327 sRc-g~v~~~~~~~~-~~~~~~swl~~~  352 (367)
                      +|| -.+++...+.. ...++...+...
T Consensus       206 rRf~~~i~i~~P~~~~r~~il~~~l~~~  233 (355)
T 2qp9_X          206 RRFERRIYIPLPDLAARTTMFEINVGDT  233 (355)
T ss_dssp             HTCCEEEECCCCCHHHHHHHHHHHHTTS
T ss_pred             cccCEEEEeCCcCHHHHHHHHHHHHhhC
Confidence            999 56777755432 344555554443

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.75  E-value=0.0008  Score=57.01  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=22.1

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ...+++.||+|+|||++.+.++..+.
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHH
Confidence            45688999999999999999887764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.75  E-value=0.0027  Score=67.11  Aligned_cols=121  Identities=19%  Similarity=0.183  Sum_probs=64.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      ...++|+||||+|||++.+.++..+..-...    .......+..++.    ....-|       ++ .+.+..++..+.
T Consensus       201 ~~~vLL~G~pGtGKT~la~~la~~l~~~~~p----~~l~~~~~~~~~~----g~~~~G-------~~-e~~l~~~~~~~~  264 (758)
T 3pxi_A          201 KNNPVLIGEPGVGKTAIAEGLAQQIINNEVP----EILRDKRVMTLDM----GTKYRG-------EF-EDRLKKVMDEIR  264 (758)
T ss_dssp             SCEEEEESCTTTTTHHHHHHHHHHHHSSCSC----TTTSSCCEECC----------------------CTTHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHHhcCCCC----hhhcCCeEEEecc----cccccc-------hH-HHHHHHHHHHHH
Confidence            3468999999999999999998876431100    0001112222222    011111       22 223445555553


Q ss_pred             cCCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC-----ccCcchhhceeeEEecc
Q psy4734         262 VSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE-----FASPATVSRVGMIYFEL  336 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~-----~asPatvsRcg~v~~~~  336 (367)
                      .   ..+..+++||..|..  ..|..+|+        .|       .+++|.-|+.-.     ...||..+||..|++++
T Consensus       265 ~---~~~~iLfiD~~~~~~--~~L~~~l~--------~~-------~v~~I~at~~~~~~~~~~~d~al~rRf~~i~v~~  324 (758)
T 3pxi_A          265 Q---AGNIILFIDAAIDAS--NILKPSLA--------RG-------ELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQ  324 (758)
T ss_dssp             T---CCCCEEEECC----------CCCTT--------SS-------SCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCC
T ss_pred             h---cCCEEEEEcCchhHH--HHHHHHHh--------cC-------CEEEEeCCChHHHHHHhhccHHHHhhCcEEEeCC
Confidence            3   345688889665522  22333332        22       466777776655     57899999999999986


Q ss_pred             cC
Q psy4734         337 KC  338 (367)
Q Consensus       337 ~~  338 (367)
                      -+
T Consensus       325 p~  326 (758)
T 3pxi_A          325 PS  326 (758)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=96.71  E-value=0.0046  Score=61.18  Aligned_cols=140  Identities=15%  Similarity=0.168  Sum_probs=73.9

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ..++++|.||||+|||++.+.++..+.             ......+++..+. ..+.|..        ...+..++..+
T Consensus       166 ~~~~vLL~GppGtGKT~lA~aia~~~~-------------~~~~~~v~~~~l~-~~~~g~~--------~~~~~~~f~~a  223 (444)
T 2zan_A          166 PWRGILLFGPPGTGKSYLAKAVATEAN-------------NSTFFSISSSDLV-SKWLGES--------EKLVKNLFQLA  223 (444)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHCC-------------SSEEEEECCC----------C--------CCTHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHcC-------------CCCEEEEeHHHHH-hhhcchH--------HHHHHHHHHHH
Confidence            347899999999999999998876541             1123345544332 1222221        22334444443


Q ss_pred             hcCCCCCceEEEEcCCCChHh-----------hhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhce
Q psy4734         261 AVSTTPDRKWIMFDGPIDAVW-----------IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRV  329 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~w-----------ie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRc  329 (367)
                      ..   ..+..|++| ++|...           -..++.+|      ..-.|- ..-+.++.+|.-+.......||..+||
T Consensus       224 ~~---~~~~vl~iD-Eid~l~~~~~~~~~~~~~~~~~~lL------~~l~~~-~~~~~~v~vI~atn~~~~ld~al~rRf  292 (444)
T 2zan_A          224 RE---NKPSIIFID-EIDSLCGSRSENESEAARRIKTEFL------VQMQGV-GVDNDGILVLGATNIPWVLDSAIRRRF  292 (444)
T ss_dssp             HH---SCSEEEEES-CTTTTCCCSSCCCCGGGHHHHHHHH------TTTTCS-SCCCSSCEEEEEESCGGGSCHHHHTTC
T ss_pred             HH---cCCeEEEEe-chHhhccCCCCccccHHHHHHHHHH------HHHhCc-ccCCCCEEEEecCCCccccCHHHHhhc
Confidence            22   345788898 444321           11112221      111110 011346667777777778899999999


Q ss_pred             e-eEEecccCCc-hHHHHHHHHHHhh
Q psy4734         330 G-MIYFELKCIS-WTTFFLSYQNELK  353 (367)
Q Consensus       330 g-~v~~~~~~~~-~~~~~~swl~~~~  353 (367)
                      . .+++...+.. ...++...+...+
T Consensus       293 ~~~i~i~~P~~~~r~~il~~~l~~~~  318 (444)
T 2zan_A          293 EKRIYIPLPEAHARAAMFRLHLGSTQ  318 (444)
T ss_dssp             CEEEECCCCCHHHHHHHHHHHHTTSC
T ss_pred             ceEEEeCCcCHHHHHHHHHHHHhcCC
Confidence            5 7777755432 4445555554433

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=96.71  E-value=0.0012  Score=59.62  Aligned_cols=138  Identities=17%  Similarity=0.271  Sum_probs=72.3

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ...++++.||+|+|||++.+.++..+.              .....+++..+.  +.|+..       ....+..+++.+
T Consensus        38 ~~~~vll~G~~GtGKT~la~~la~~~~--------------~~~~~~~~~~~~--~~~~~~-------~~~~~~~~~~~a   94 (262)
T 2qz4_A           38 VPKGALLLGPPGCGKTLLAKAVATEAQ--------------VPFLAMAGAEFV--EVIGGL-------GAARVRSLFKEA   94 (262)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHT--------------CCEEEEETTTTS--SSSTTH-------HHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhC--------------CCEEEechHHHH--hhccCh-------hHHHHHHHHHHH
Confidence            456789999999999999998877542              112334443321  122211       111233334433


Q ss_pred             hcCCCCCceEEEEcCCCChH---------------hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcch
Q psy4734         261 AVSTTPDRKWIMFDGPIDAV---------------WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPAT  325 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~---------------wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPat  325 (367)
                      ..   ..+..+++| ++|..               .-..++.++..     +   +.+.-++++.+|.-+.......|+.
T Consensus        95 ~~---~~~~vl~iD-eid~l~~~~~~~~~~~~~~~~~~~l~~ll~~-----~---~~~~~~~~~~vi~~tn~~~~ld~~l  162 (262)
T 2qz4_A           95 RA---RAPCIVYID-EIDAVGKKRSTTMSGFSNTEEEQTLNQLLVE-----M---DGMGTTDHVIVLASTNRADILDGAL  162 (262)
T ss_dssp             HH---TCSEEEEEE-CC-------------------CHHHHHHHHH-----H---HTCCTTCCEEEEEEESCGGGGGSGG
T ss_pred             Hh---cCCeEEEEe-CcchhhccccccccCccchhHHHHHHHHHHH-----h---hCcCCCCCEEEEecCCChhhcCHHH
Confidence            22   235688888 45432               22233333321     0   0011234566666666666677888


Q ss_pred             hh--ce-eeEEecccCC-chHHHHHHHHHHhh
Q psy4734         326 VS--RV-GMIYFELKCI-SWTTFFLSYQNELK  353 (367)
Q Consensus       326 vs--Rc-g~v~~~~~~~-~~~~~~~swl~~~~  353 (367)
                      ++  |+ -.+++..-+. ....++..++...+
T Consensus       163 ~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~  194 (262)
T 2qz4_A          163 MRPGRLDRHVFIDLPTLQERREIFEQHLKSLK  194 (262)
T ss_dssp             GSTTSCCEEEECCSCCHHHHHHHHHHHHHHTT
T ss_pred             hcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCC
Confidence            88  88 4666665432 24456666666543

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.66  E-value=0.0023  Score=65.82  Aligned_cols=69  Identities=14%  Similarity=0.152  Sum_probs=45.2

Q ss_pred             ceEEEEc--CCCChHhhhhhhhccCCCCceeecccc--------eeecCCCCeEEEecCCC--CccCcchhhcee----e
Q psy4734         268 RKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGE--------IIKMSNTMNLIFECENL--EFASPATVSRVG----M  331 (367)
Q Consensus       268 ~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge--------~i~l~~~~~~ifE~~~l--~~asPatvsRcg----~  331 (367)
                      ..++++|  +.+++.--+.|..+|++...-....++        .-+++.++++|+-++.-  ....|+..+||.    .
T Consensus       202 ~gvL~LDEi~~l~~~~q~~Ll~~Le~~~~~~~g~~~~~~~~~l~~~~~p~~~~vI~atn~~~~~~l~~~l~~R~~v~~i~  281 (604)
T 3k1j_A          202 KGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDTVDKMHPALRSRIRGYGYE  281 (604)
T ss_dssp             TSEEEETTGGGSCHHHHHHHHHHHHHSEECCBCSCTTSGGGGCBCSCEECCCEEEEEECHHHHHHSCHHHHHHHHHHSEE
T ss_pred             CCEEEEechhhCCHHHHHHHHHHHHcCcEEecccccccccccCCCCccceeEEEEEecCHHHHhhcCHHHHHHhhccceE
Confidence            3599999  445666667777777655433332212        33456688898877753  578999999994    4


Q ss_pred             EEecc
Q psy4734         332 IYFEL  336 (367)
Q Consensus       332 v~~~~  336 (367)
                      +++.+
T Consensus       282 i~l~~  286 (604)
T 3k1j_A          282 VYMRT  286 (604)
T ss_dssp             EECCS
T ss_pred             eeccc
Confidence            55543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.66  E-value=0.0036  Score=59.23  Aligned_cols=139  Identities=15%  Similarity=0.169  Sum_probs=74.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      .++++|.||||+|||++.+.++..+.             ......+++..+. ....|.        ....+..++..+.
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~~~~-------------~~~~~~i~~~~l~-~~~~g~--------~~~~~~~lf~~a~  102 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVATEAN-------------NSTFFSISSSDLV-SKWLGE--------SEKLVKNLFQLAR  102 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHHTT-------------SCEEEEEECCSSC-CSSCCS--------CHHHHHHHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHHHcC-------------CCcEEEEEhHHHH-hhhhhH--------HHHHHHHHHHHHH
Confidence            47899999999999999998876541             0123334443332 112221        1223334444332


Q ss_pred             cCCCCCceEEEEcCCCChHhh-----------hhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhce-
Q psy4734         262 VSTTPDRKWIMFDGPIDAVWI-----------ENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRV-  329 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~d~~wi-----------e~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRc-  329 (367)
                      .   ..+..|++| ++|..-.           ..++.+|      ..-.|- ..-+.++.+|.-+.......||..+|| 
T Consensus       103 ~---~~~~vl~iD-Eid~l~~~~~~~~~~~~~~~~~~ll------~~ld~~-~~~~~~v~vI~atn~~~~ld~al~rRf~  171 (322)
T 1xwi_A          103 E---NKPSIIFID-EIDSLCGSRSENESEAARRIKTEFL------VQMQGV-GVDNDGILVLGATNIPWVLDSAIRRRFE  171 (322)
T ss_dssp             H---TSSEEEEEE-TTTGGGCCSSSCCTTHHHHHHHHHH------HHHHCS-SSCCTTEEEEEEESCTTTSCHHHHHTCC
T ss_pred             h---cCCcEEEee-cHHHhccccccccchHHHHHHHHHH------HHHhcc-cccCCCEEEEEecCCcccCCHHHHhhcC
Confidence            2   345789999 5554311           0111111      111110 001345556666766777889999999 


Q ss_pred             eeEEecccCCc-hHHHHHHHHHHhh
Q psy4734         330 GMIYFELKCIS-WTTFFLSYQNELK  353 (367)
Q Consensus       330 g~v~~~~~~~~-~~~~~~swl~~~~  353 (367)
                      -.+++...+.. ...++...+...+
T Consensus       172 ~~i~i~~P~~~~r~~il~~~l~~~~  196 (322)
T 1xwi_A          172 KRIYIPLPEPHARAAMFKLHLGTTQ  196 (322)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHTTCC
T ss_pred             eEEEeCCcCHHHHHHHHHHHHhcCC
Confidence            56788755432 4445555554443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.64  E-value=0.0038  Score=57.67  Aligned_cols=26  Identities=27%  Similarity=0.358  Sum_probs=22.2

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+++++.||+|+|||++.+.++..+
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~   78 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATEC   78 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            35789999999999999999887654

>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=96.54  E-value=0.0017  Score=60.92  Aligned_cols=112  Identities=17%  Similarity=0.215  Sum_probs=68.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      +.+++.||+|+|||++.+.+++.++              ..+..+|+....                .+.+...+.+...
T Consensus        49 ~~~L~~G~~G~GKT~la~~la~~l~--------------~~~~~i~~~~~~----------------~~~i~~~~~~~~~   98 (324)
T 3u61_B           49 HIILHSPSPGTGKTTVAKALCHDVN--------------ADMMFVNGSDCK----------------IDFVRGPLTNFAS   98 (324)
T ss_dssp             SEEEECSSTTSSHHHHHHHHHHHTT--------------EEEEEEETTTCC----------------HHHHHTHHHHHHH
T ss_pred             eEEEeeCcCCCCHHHHHHHHHHHhC--------------CCEEEEcccccC----------------HHHHHHHHHHHHh
Confidence            4466778899999999998876652              223345543311                1112222333222


Q ss_pred             C--CCCCceEEEEcCCCChH----hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecc
Q psy4734         263 S--TTPDRKWIMFDGPIDAV----WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFEL  336 (367)
Q Consensus       263 ~--~~~~~~wivfDG~~d~~----wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~  336 (367)
                      .  .....+.+++| ++|..    ..+.|..++++             .++++++|+-+.......|+..|||..+.+.+
T Consensus        99 ~~~~~~~~~vliiD-Ei~~l~~~~~~~~L~~~le~-------------~~~~~~iI~~~n~~~~l~~~l~sR~~~i~~~~  164 (324)
T 3u61_B           99 AASFDGRQKVIVID-EFDRSGLAESQRHLRSFMEA-------------YSSNCSIIITANNIDGIIKPLQSRCRVITFGQ  164 (324)
T ss_dssp             BCCCSSCEEEEEEE-SCCCGGGHHHHHHHHHHHHH-------------HGGGCEEEEEESSGGGSCTTHHHHSEEEECCC
T ss_pred             hcccCCCCeEEEEE-CCcccCcHHHHHHHHHHHHh-------------CCCCcEEEEEeCCccccCHHHHhhCcEEEeCC
Confidence            2  12367899999 55543    33444444432             13567788877778888999999999999876


Q ss_pred             cC
Q psy4734         337 KC  338 (367)
Q Consensus       337 ~~  338 (367)
                      -.
T Consensus       165 ~~  166 (324)
T 3u61_B          165 PT  166 (324)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.48  E-value=0.0067  Score=56.89  Aligned_cols=153  Identities=14%  Similarity=0.177  Sum_probs=87.6

Q ss_pred             HHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceeccc-ccc--cc
Q psy4734         177 KIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDSA-SHE--WR  249 (367)
Q Consensus       177 k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~~-~~~--W~  249 (367)
                      +.......+++.|++|+|||++.+.++......           ......+|+.+++    ..+|||..... ++.  -.
T Consensus        20 ~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~-----------~~~~v~v~~~~~~~~l~~~~lfg~~~g~~tg~~~~~   88 (304)
T 1ojl_A           20 MVAPSDATVLIHGDSGTGKELVARALHACSARS-----------DRPLVTLNCAALNESLLESELFGHEKGAFTGADKRR   88 (304)
T ss_dssp             HHCSTTSCEEEESCTTSCHHHHHHHHHHHSSCS-----------SSCCCEEECSSCCHHHHHHHHTCCCSSCCC---CCC
T ss_pred             HHhCCCCcEEEECCCCchHHHHHHHHHHhCccc-----------CCCeEEEeCCCCChHHHHHHhcCccccccCchhhhh
Confidence            333456779999999999999988876543211           1122346666664    35677753110 111  12


Q ss_pred             cchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC-C------c
Q psy4734         250 DGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL-E------F  320 (367)
Q Consensus       250 dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l-~------~  320 (367)
                      .|.+..    +      ....+++|  +.+...-...|-.+|++.....  -|..-..+.++++|+-+..- .      .
T Consensus        89 ~g~~~~----a------~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~--~g~~~~~~~~~riI~atn~~l~~~v~~g~  156 (304)
T 1ojl_A           89 EGRFVE----A------DGGTLFLDEIGDISPLMQVRLLRAIQEREVQR--VGSNQTISVDVRLIAATHRDLAEEVSAGR  156 (304)
T ss_dssp             CCHHHH----H------TTSEEEEESCTTCCHHHHHHHHHHHHSSBCCB--TTBCCCCBCCCEEEEEESSCHHHHHHHTS
T ss_pred             cCHHHh----c------CCCEEEEeccccCCHHHHHHHHHHHhcCEeee--cCCcccccCCeEEEEecCccHHHHHHhCC
Confidence            343322    2      12469999  4455555666667777654433  34444566788898877642 1      2


Q ss_pred             cCcchhhceeeEEecccCCc-----hHHHHHHHHHHh
Q psy4734         321 ASPATVSRVGMIYFELKCIS-----WTTFFLSYQNEL  352 (367)
Q Consensus       321 asPatvsRcg~v~~~~~~~~-----~~~~~~swl~~~  352 (367)
                      ..|...+|+..+.+.-..+.     ...++..++...
T Consensus       157 fr~~L~~Rl~~~~i~lPpL~eR~edi~~l~~~~l~~~  193 (304)
T 1ojl_A          157 FRQDLYYRLNVVAIEMPSLRQRREDIPLLADHFLRRF  193 (304)
T ss_dssp             SCHHHHHHHSSEEEECCCSGGGGGGHHHHHHHHHHHH
T ss_pred             cHHHHHhhcCeeEEeccCHHHhHhhHHHHHHHHHHHH
Confidence            45778899866554322222     445666666654

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.42  E-value=0.0095  Score=56.55  Aligned_cols=153  Identities=12%  Similarity=0.072  Sum_probs=76.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc-cccccce----ecc--ccccc-ccchH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT-MGQLYGE----FDS--ASHEW-RDGIL  253 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t-~~~l~G~----~d~--~~~~W-~dGil  253 (367)
                      ...+++.||+|+|||++++.++..+.......     +..+.+..+|....+ ..+++..    +..  ....+ .+.++
T Consensus        44 ~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~-----~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~  118 (387)
T 2v1u_A           44 PSNALLYGLTGTGKTAVARLVLRRLEARASSL-----GVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVY  118 (387)
T ss_dssp             CCCEEECBCTTSSHHHHHHHHHHHHHHHHHHH-----TCCEEEEEEETTTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHHHhcc-----CCCeEEEEEECCcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHH
Confidence            45688999999999999999887765432110     112344445654432 2222221    110  00111 12223


Q ss_pred             HHHHHHHhcCCCCCceEEEEcCCCChHh-----hhhhhhccCCCCceeecccceeecCCCCeEEEecCCC---CccCcch
Q psy4734         254 AKTFREMAVSTTPDRKWIMFDGPIDAVW-----IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL---EFASPAT  325 (367)
Q Consensus       254 ~~~~r~~~~~~~~~~~wivfDG~~d~~w-----ie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l---~~asPat  325 (367)
                      ..+.....  ....+..+++| ++|...     -+.|..+++..        +..+.+.++.+|+-+.+.   ....|+.
T Consensus       119 ~~l~~~l~--~~~~~~vlilD-Ei~~l~~~~~~~~~l~~l~~~~--------~~~~~~~~~~~I~~t~~~~~~~~l~~~l  187 (387)
T 2v1u_A          119 ERLVKRLS--RLRGIYIIVLD-EIDFLPKRPGGQDLLYRITRIN--------QELGDRVWVSLVGITNSLGFVENLEPRV  187 (387)
T ss_dssp             HHHHHHHT--TSCSEEEEEEE-TTTHHHHSTTHHHHHHHHHHGG--------GCC-----CEEEEECSCSTTSSSSCHHH
T ss_pred             HHHHHHHh--ccCCeEEEEEc-cHhhhcccCCCChHHHhHhhch--------hhcCCCceEEEEEEECCCchHhhhCHHH
Confidence            33333322  23346789999 555442     23344333211        000113456677766655   6678899


Q ss_pred             hhcee--eEEecccCC-chHHHHHHHHH
Q psy4734         326 VSRVG--MIYFELKCI-SWTTFFLSYQN  350 (367)
Q Consensus       326 vsRcg--~v~~~~~~~-~~~~~~~swl~  350 (367)
                      .+||+  .+++.+-.. ....++...+.
T Consensus       188 ~~r~~~~~i~l~~l~~~~~~~il~~~~~  215 (387)
T 2v1u_A          188 KSSLGEVELVFPPYTAPQLRDILETRAE  215 (387)
T ss_dssp             HTTTTSEECCBCCCCHHHHHHHHHHHHH
T ss_pred             HhcCCCeEEeeCCCCHHHHHHHHHHHHH
Confidence            99994  567765432 13344444443

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.41  E-value=0.0081  Score=56.85  Aligned_cols=116  Identities=18%  Similarity=0.221  Sum_probs=64.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC-
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS-  263 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~-  263 (367)
                      ++|.||+|+||||+++.++..+..-..         .+.+..+|+...     .| .        + .+-..+...... 
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~~~~~---------~~~~~~~~~~~~-----~~-~--------~-~ir~~i~~~~~~~  104 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIYGKNY---------SNMVLELNASDD-----RG-I--------D-VVRNQIKDFASTR  104 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHTTSH---------HHHEEEECTTSC-----CS-H--------H-HHHTHHHHHHHBC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcCCCc---------cceEEEEcCccc-----cc-H--------H-HHHHHHHHHHhhc
Confidence            788999999999999999988742110         111222343211     01 0        0 011122222211 


Q ss_pred             --CCCCceEEEEcCCCChH---hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         264 --TTPDRKWIMFDGPIDAV---WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       264 --~~~~~~wivfDG~~d~~---wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                        -....+.+|+|. +|..   -.+.|..++++             .+++.++++-+......-|+..|||..+.+.+-.
T Consensus       105 ~~~~~~~~viiiDe-~~~l~~~~~~~L~~~le~-------------~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~l~  170 (340)
T 1sxj_C          105 QIFSKGFKLIILDE-ADAMTNAAQNALRRVIER-------------YTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLP  170 (340)
T ss_dssp             CSSSCSCEEEEETT-GGGSCHHHHHHHHHHHHH-------------TTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCC
T ss_pred             ccCCCCceEEEEeC-CCCCCHHHHHHHHHHHhc-------------CCCCeEEEEEecCccccchhHHhhceeEeccCCC
Confidence              123478899993 3322   22222222221             2345667777777778889999999988887643

>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=96.39  E-value=0.0068  Score=56.99  Aligned_cols=130  Identities=15%  Similarity=0.194  Sum_probs=77.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccch--HHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGI--LAKTFREM  260 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGi--l~~~~r~~  260 (367)
                      +..+|.||+|+|||++.+.+++.......        ....+..++|..-                .-|+  +-.++..+
T Consensus        19 ~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~--------~~~d~~~l~~~~~----------------~~~id~ir~li~~~   74 (305)
T 2gno_A           19 ISILINGEDLSYPREVSLELPEYVEKFPP--------KASDVLEIDPEGE----------------NIGIDDIRTIKDFL   74 (305)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHHHTSCC--------CTTTEEEECCSSS----------------CBCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhCchhhc--------cCCCEEEEcCCcC----------------CCCHHHHHHHHHHH
Confidence            46788999999999999998875321100        0112233454310                0111  22344444


Q ss_pred             hcCC-CCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccCC
Q psy4734         261 AVST-TPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCI  339 (367)
Q Consensus       261 ~~~~-~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~~  339 (367)
                      ...+ ...++.+|+| ++|..-.+..|.+|.   .|     |  ..|++..||+-+++....-|+..||  ++.+.+-.-
T Consensus        75 ~~~p~~~~~kvviId-ead~lt~~a~naLLk---~L-----E--ep~~~t~fIl~t~~~~kl~~tI~SR--~~~f~~l~~  141 (305)
T 2gno_A           75 NYSPELYTRKYVIVH-DCERMTQQAANAFLK---AL-----E--EPPEYAVIVLNTRRWHYLLPTIKSR--VFRVVVNVP  141 (305)
T ss_dssp             TSCCSSSSSEEEEET-TGGGBCHHHHHHTHH---HH-----H--SCCTTEEEEEEESCGGGSCHHHHTT--SEEEECCCC
T ss_pred             hhccccCCceEEEec-cHHHhCHHHHHHHHH---HH-----h--CCCCCeEEEEEECChHhChHHHHce--eEeCCCCCH
Confidence            3333 2457899999 444443444454431   11     1  1356788899999999999999999  888876542


Q ss_pred             chHHHHHHHHHHh
Q psy4734         340 SWTTFFLSYQNEL  352 (367)
Q Consensus       340 ~~~~~~~swl~~~  352 (367)
                         .-+..|+...
T Consensus       142 ---~~i~~~L~~~  151 (305)
T 2gno_A          142 ---KEFRDLVKEK  151 (305)
T ss_dssp             ---HHHHHHHHHH
T ss_pred             ---HHHHHHHHHH
Confidence               4456676554

>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=96.30  E-value=0.0016  Score=62.63  Aligned_cols=25  Identities=36%  Similarity=0.537  Sum_probs=21.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+.++|.||||+|||++.+.++..+
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHh
Confidence            4568999999999999999988765

>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=96.24  E-value=0.0021  Score=60.64  Aligned_cols=133  Identities=15%  Similarity=0.168  Sum_probs=69.5

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      .++++|.||||+|||++.+.++..++              .....+++.     ++.+.+-..    ..+.+..+++.+.
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~~~--------------~~~~~v~~~-----~l~~~~~g~----~~~~~~~~f~~a~  107 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATEAN--------------STFFSVSSS-----DLVSKWMGE----SEKLVKQLFAMAR  107 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHHHT--------------CEEEEEEHH-----HHHTTTGGG----HHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHC--------------CCEEEEchH-----HHhhcccch----HHHHHHHHHHHHH
Confidence            46799999999999999998876541              122233332     222221101    1223333443332


Q ss_pred             cCCCCCceEEEEcCCCChHh--------------hhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhh
Q psy4734         262 VSTTPDRKWIMFDGPIDAVW--------------IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVS  327 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~d~~w--------------ie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvs  327 (367)
                      .   ..+..|++| ++|...              ...+-..++.-          ..-+.++.+|.-+.......||..+
T Consensus       108 ~---~~~~vl~iD-Eid~l~~~~~~~~~~~~~~~~~~ll~~l~~~----------~~~~~~v~vi~atn~~~~ld~al~~  173 (322)
T 3eie_A          108 E---NKPSIIFID-QVDALTGTRGEGESEASRRIKTELLVQMNGV----------GNDSQGVLVLGATNIPWQLDSAIRR  173 (322)
T ss_dssp             H---TSSEEEEEE-CGGGGSCC------CCTHHHHHHHHHHHGGG----------GTSCCCEEEEEEESCGGGSCHHHHH
T ss_pred             h---cCCeEEEec-hhhhhhccCCCCcchHHHHHHHHHHHHhccc----------cccCCceEEEEecCChhhCCHHHHc
Confidence            2   245688888 444321              11111122210          0123345667677777788999999


Q ss_pred             cee-eEEecccCCc-hHHHHHHHHHH
Q psy4734         328 RVG-MIYFELKCIS-WTTFFLSYQNE  351 (367)
Q Consensus       328 Rcg-~v~~~~~~~~-~~~~~~swl~~  351 (367)
                      ||. .+++...+.. -..++...+..
T Consensus       174 Rf~~~i~~~~p~~~~r~~il~~~~~~  199 (322)
T 3eie_A          174 RFERRIYIPLPDLAARTTMFEINVGD  199 (322)
T ss_dssp             HCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             ccCeEEEeCCCCHHHHHHHHHHHhcc
Confidence            994 5667654432 22344444433

>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=96.20  E-value=0.0055  Score=58.73  Aligned_cols=137  Identities=15%  Similarity=0.192  Sum_probs=69.4

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ..++++|.||+|+|||++.+.++..++              .....+++.     ++++.+-...    .+.+..++..+
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~~~~--------------~~~~~i~~~-----~l~~~~~g~~----~~~~~~~~~~a  172 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIASQSG--------------ATFFSISAS-----SLTSKWVGEG----EKMVRALFAVA  172 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHHHTT--------------CEEEEEEGG-----GGCCSSTTHH----HHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHcC--------------CeEEEEehH-----HhhccccchH----HHHHHHHHHHH
Confidence            456899999999999999998876541              122334433     2332221110    11222223222


Q ss_pred             hcCCCCCceEEEEcCCCChHh-----------hhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhce
Q psy4734         261 AVSTTPDRKWIMFDGPIDAVW-----------IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRV  329 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~w-----------ie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRc  329 (367)
                      .   ...+..|++| ++|...           ...++.+|      ..-.|-....+.++.+|.-+.......|+..+||
T Consensus       173 ~---~~~~~vl~iD-Eid~l~~~~~~~~~~~~~~~~~~lL------~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~Rf  242 (357)
T 3d8b_A          173 R---CQQPAVIFID-EIDSLLSQRGDGEHESSRRIKTEFL------VQLDGATTSSEDRILVVGATNRPQEIDEAARRRL  242 (357)
T ss_dssp             H---HTCSEEEEEE-THHHHTBC------CHHHHHHHHHH------HHHHC----CCCCEEEEEEESCGGGBCHHHHTTC
T ss_pred             H---hcCCeEEEEe-CchhhhccCCCCcchHHHHHHHHHH------HHHhcccccCCCCEEEEEecCChhhCCHHHHhhC
Confidence            1   1345789999 332210           01111111      1111111122345666777777777889999999


Q ss_pred             e-eEEecccCCc-hHHHHHHHHH
Q psy4734         330 G-MIYFELKCIS-WTTFFLSYQN  350 (367)
Q Consensus       330 g-~v~~~~~~~~-~~~~~~swl~  350 (367)
                      . .+++...+.. ...++...+.
T Consensus       243 ~~~i~i~~p~~~~r~~il~~~~~  265 (357)
T 3d8b_A          243 VKRLYIPLPEASARKQIVINLMS  265 (357)
T ss_dssp             CEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ceEEEeCCcCHHHHHHHHHHHHh
Confidence            8 5677654432 3334444443

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=96.12  E-value=0.013  Score=53.20  Aligned_cols=25  Identities=28%  Similarity=0.392  Sum_probs=21.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+++|.||+|+|||++.+.++..+
T Consensus        44 ~~~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           44 PKGVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             CSCCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCcHHHHHHHHHHHh
Confidence            5679999999999999999887754

>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=95.98  E-value=0.0043  Score=56.71  Aligned_cols=25  Identities=28%  Similarity=0.283  Sum_probs=21.4

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      -++++|++||||||+.+.|++.+..
T Consensus         6 lIvl~G~pGSGKSTla~~La~~L~~   30 (260)
T 3a4m_A            6 LIILTGLPGVGKSTFSKNLAKILSK   30 (260)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            3677899999999999999988754

>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=95.76  E-value=0.00083  Score=64.45  Aligned_cols=25  Identities=32%  Similarity=0.481  Sum_probs=21.9

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+++|.||||+|||++.+.++..+
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4578999999999999999988765

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=95.65  E-value=0.055  Score=51.92  Aligned_cols=101  Identities=17%  Similarity=0.156  Sum_probs=52.5

Q ss_pred             hHHHHHhhhhh-heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccch
Q psy4734         174 HLKKIFEVRHG-LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGI  252 (367)
Q Consensus       174 ~l~k~~~~~~~-v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGi  252 (367)
                      .+..+.....+ +.++||+||||||+++++...+..-...        . .+..-+|-.......-+.+.........--
T Consensus       114 ~l~~l~~~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~--------~-i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~  184 (356)
T 3jvv_A          114 VFKRVSDVPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYH--------H-ILTIEDPIEFVHESKKCLVNQREVHRDTLG  184 (356)
T ss_dssp             HHHHHHHCSSEEEEEECSTTSCHHHHHHHHHHHHHHHCCC--------E-EEEEESSCCSCCCCSSSEEEEEEBTTTBSC
T ss_pred             HHHHHHhCCCCEEEEECCCCCCHHHHHHHHHhcccCCCCc--------E-EEEccCcHHhhhhccccceeeeeeccccCC
Confidence            45555555555 5567999999999999988776543111        1 122223332222211111110000000011


Q ss_pred             HHHHHHHHhcCCCCCceEEEEcCCCChHhhhhhh
Q psy4734         253 LAKTFREMAVSTTPDRKWIMFDGPIDAVWIENMN  286 (367)
Q Consensus       253 l~~~~r~~~~~~~~~~~wivfDG~~d~~wie~ln  286 (367)
                      +..+++.+.   -.+++.|++|=|-|..-++.+-
T Consensus       185 ~~~~La~aL---~~~PdvillDEp~d~e~~~~~~  215 (356)
T 3jvv_A          185 FSEALRSAL---REDPDIILVGEMRDLETIRLAL  215 (356)
T ss_dssp             HHHHHHHHT---TSCCSEEEESCCCSHHHHHHHH
T ss_pred             HHHHHHHHh---hhCcCEEecCCCCCHHHHHHHH
Confidence            333444432   2577999999999987766543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.52  E-value=0.0041  Score=61.45  Aligned_cols=26  Identities=23%  Similarity=0.359  Sum_probs=22.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -..|++|.||||+|||++.+.+|..+
T Consensus       214 ~prGvLL~GPPGtGKTllAkAiA~e~  239 (437)
T 4b4t_L          214 PPKGVLLYGPPGTGKTLLAKAVAATI  239 (437)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            45899999999999999999888755

>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=95.18  E-value=0.05  Score=58.19  Aligned_cols=126  Identities=18%  Similarity=0.175  Sum_probs=62.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccc-cccceecccccccccchHHHHHHHHh
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMG-QLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~-~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      .+++++||||+|||++.+.++..+..-...    ..-....+..++..++..+ ...       ++|.. .+..+++.+.
T Consensus       192 ~~vlL~G~pG~GKT~la~~la~~l~~~~~p----~~l~~~~~~~l~~~~l~~g~~~~-------g~~~~-~l~~~~~~~~  259 (854)
T 1qvr_A          192 NNPVLIGEPGVGKTAIVEGLAQRIVKGDVP----EGLKGKRIVSLQMGSLLAGAKYR-------GEFEE-RLKAVIQEVV  259 (854)
T ss_dssp             CCCEEEECTTSCHHHHHHHHHHHHHHTCSC----TTSTTCEEEEECC------------------CHHH-HHHHHHHHHH
T ss_pred             CceEEEcCCCCCHHHHHHHHHHHHhcCCCc----hhhcCCeEEEeehHHhhccCccc-------hHHHH-HHHHHHHHHH
Confidence            468999999999999999998876431100    0001223444555443211 111       12211 2334444443


Q ss_pred             cCCCCCceEEEEcCCCChHh-----------hhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC----ccCcchh
Q psy4734         262 VSTTPDRKWIMFDGPIDAVW-----------IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE----FASPATV  326 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~d~~w-----------ie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~----~asPatv  326 (367)
                      ..  ..+..+++| ++|..-           ...|..+++.               ..+.+|.-++.-.    ...||..
T Consensus       260 ~~--~~~~iL~ID-Ei~~l~~~~~~~g~~~~~~~L~~~l~~---------------~~i~~I~at~~~~~~~~~~d~aL~  321 (854)
T 1qvr_A          260 QS--QGEVILFID-ELHTVVGAGKAEGAVDAGNMLKPALAR---------------GELRLIGATTLDEYREIEKDPALE  321 (854)
T ss_dssp             TT--CSSEEEEEC-CC-------------------HHHHHT---------------TCCCEEEEECHHHHHHHTTCTTTC
T ss_pred             hc--CCCeEEEEe-cHHHHhccCCccchHHHHHHHHHHHhC---------------CCeEEEEecCchHHhhhccCHHHH
Confidence            21  234677778 343221           1122333221               2355666665432    3579999


Q ss_pred             hceeeEEecccC
Q psy4734         327 SRVGMIYFELKC  338 (367)
Q Consensus       327 sRcg~v~~~~~~  338 (367)
                      +||..|++++-.
T Consensus       322 rRf~~i~l~~p~  333 (854)
T 1qvr_A          322 RRFQPVYVDEPT  333 (854)
T ss_dssp             SCCCCEEECCCC
T ss_pred             hCCceEEeCCCC
Confidence            999999998755

>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=94.94  E-value=0.053  Score=57.01  Aligned_cols=26  Identities=35%  Similarity=0.363  Sum_probs=22.5

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..+++++||+|+|||++.+.++..+.
T Consensus       207 ~~~vlL~G~~GtGKT~la~~la~~l~  232 (758)
T 1r6b_X          207 KNNPLLVGESGVGKTAIAEGLAWRIV  232 (758)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEcCCCCCHHHHHHHHHHHHH
Confidence            35588999999999999999988764

>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=94.87  E-value=0.025  Score=56.98  Aligned_cols=24  Identities=38%  Similarity=0.361  Sum_probs=21.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ++++|.||+|+|||++++.+++.+
T Consensus        78 ~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           78 RAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            678999999999999999988765

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=94.80  E-value=0.011  Score=49.36  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus         4 i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            4 IILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999988765

>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=94.66  E-value=0.056  Score=51.26  Aligned_cols=144  Identities=16%  Similarity=0.155  Sum_probs=71.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccce----e---ccccccc-ccchHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGE----F---DSASHEW-RDGILA  254 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~----~---d~~~~~W-~dGil~  254 (367)
                      .+++.||+|+|||++++.++..+....          .+.+..+|.... +..+++..    +   .+. ..+ .+.++.
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~~~~----------~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~-~~~~~~~~~~  114 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYKDKT----------TARFVYINGFIYRNFTAIIGEIARSLNIPFPR-RGLSRDEFLA  114 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSC----------CCEEEEEETTTCCSHHHHHHHHHHHTTCCCCS-SCCCHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhhhc----------CeeEEEEeCccCCCHHHHHHHHHHHhCccCCC-CCCCHHHHHH
Confidence            578899999999999998876542110          123334553322 22222211    1   111 111 112222


Q ss_pred             HHHHHHhcCCCCCceEEEEcCC--CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC---CccCcchhhce
Q psy4734         255 KTFREMAVSTTPDRKWIMFDGP--IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL---EFASPATVSRV  329 (367)
Q Consensus       255 ~~~r~~~~~~~~~~~wivfDG~--~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l---~~asPatvsRc  329 (367)
                      .+.+....  ...+..|++|-.  ++....+.|..++++-     + ++   -..++.+|+=+.+.   ....|...+||
T Consensus       115 ~l~~~l~~--~~~~~vlilDE~~~l~~~~~~~L~~~~~~~-----~-~~---~~~~~~iI~~~~~~~~~~~l~~~~~~r~  183 (389)
T 1fnn_A          115 LLVEHLRE--RDLYMFLVLDDAFNLAPDILSTFIRLGQEA-----D-KL---GAFRIALVIVGHNDAVLNNLDPSTRGIM  183 (389)
T ss_dssp             HHHHHHHH--TTCCEEEEEETGGGSCHHHHHHHHHHTTCH-----H-HH---SSCCEEEEEEESSTHHHHTSCHHHHHHH
T ss_pred             HHHHHHhh--cCCeEEEEEECccccchHHHHHHHHHHHhC-----C-CC---CcCCEEEEEEECCchHHHHhCHHhhhcC
Confidence            22222211  244679999932  3455555555444321     0 00   01245566655554   55778889999


Q ss_pred             e--eEEecccCC-chHHHHHHHH
Q psy4734         330 G--MIYFELKCI-SWTTFFLSYQ  349 (367)
Q Consensus       330 g--~v~~~~~~~-~~~~~~~swl  349 (367)
                      +  .+.+.|-.. ....++...+
T Consensus       184 ~~~~i~~~pl~~~~~~~~l~~~~  206 (389)
T 1fnn_A          184 GKYVIRFSPYTKDQIFDILLDRA  206 (389)
T ss_dssp             TTCEEECCCCBHHHHHHHHHHHH
T ss_pred             CCceEEeCCCCHHHHHHHHHHHH
Confidence            8  577776432 1344444444

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=94.63  E-value=0.01  Score=50.23  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|++||||||+.+.|++.+
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            6678999999999999998865

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.59  E-value=0.011  Score=49.73  Aligned_cols=23  Identities=35%  Similarity=0.465  Sum_probs=19.9

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++||||||+.+.|+..+
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            36788999999999999988765

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=94.57  E-value=0.014  Score=49.62  Aligned_cols=23  Identities=35%  Similarity=0.338  Sum_probs=20.6

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.++
T Consensus         6 I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            6 VVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            56789999999999999998775

>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=94.34  E-value=0.017  Score=50.15  Aligned_cols=23  Identities=35%  Similarity=0.296  Sum_probs=20.7

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++||||||+.+.|+..+.
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            66789999999999999998885

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.34  E-value=0.016  Score=56.52  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=22.5

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|++|.||||+|||.+.+.+|..+
T Consensus       181 ~prGvLL~GPPGTGKTllAkAiA~e~  206 (405)
T 4b4t_J          181 QPKGVILYGPPGTGKTLLARAVAHHT  206 (405)
T ss_dssp             CCCCEEEESCSSSSHHHHHHHHHHHH
T ss_pred             CCCceEEeCCCCCCHHHHHHHHHHhh
Confidence            45899999999999999998887654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=94.33  E-value=0.016  Score=49.27  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||+.+.|++.++.
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            4 GIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            567899999999999999988763

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=94.33  E-value=0.017  Score=49.26  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=20.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.++|++||||||+.+.|++.+
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            347788999999999999998776

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=94.32  E-value=0.015  Score=49.81  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||+++.|...+
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            5678999999999999987654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.29  E-value=0.02  Score=49.04  Aligned_cols=24  Identities=25%  Similarity=0.356  Sum_probs=20.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.+.|++||||||+.+.|++.+
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            347788999999999999998876

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=94.24  E-value=0.018  Score=50.09  Aligned_cols=25  Identities=28%  Similarity=0.258  Sum_probs=21.4

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...+.++|++||||||+.+.|++.+
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3457888999999999999998776

>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=94.23  E-value=0.018  Score=49.05  Aligned_cols=26  Identities=27%  Similarity=0.252  Sum_probs=22.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..++.+.||+|+||||+.+.++..+.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45688899999999999999887664

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=94.21  E-value=0.019  Score=57.53  Aligned_cols=120  Identities=22%  Similarity=0.295  Sum_probs=66.1

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ...+++|.||||+|||++.+.++..++              ..+..+|+.++. .+++|..        .|-+..++..+
T Consensus       237 ~~~~vLL~GppGtGKT~lAraia~~~~--------------~~fv~vn~~~l~-~~~~g~~--------~~~~~~~f~~A  293 (489)
T 3hu3_A          237 PPRGILLYGPPGTGKTLIARAVANETG--------------AFFFLINGPEIM-SKLAGES--------ESNLRKAFEEA  293 (489)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHCS--------------SEEEEEEHHHHH-TSCTTHH--------HHHHHHHHHHH
T ss_pred             CCCcEEEECcCCCCHHHHHHHHHHHhC--------------CCEEEEEchHhh-hhhcchh--------HHHHHHHHHHH
Confidence            346799999999999999988765431              123345544332 2334422        12233344443


Q ss_pred             hcCCCCCceEEEEcCCCChH--------------hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchh
Q psy4734         261 AVSTTPDRKWIMFDGPIDAV--------------WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATV  326 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~--------------wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatv  326 (367)
                      ..   ..+..+++| ++|..              ....|-.+|+.           ...+.++.+|.-|.......|+..
T Consensus       294 ~~---~~p~iLfLD-EId~l~~~~~~~~~~~~~~~~~~LL~~ld~-----------~~~~~~v~vIaaTn~~~~Ld~al~  358 (489)
T 3hu3_A          294 EK---NAPAIIFID-ELDAIAPKREKTHGEVERRIVSQLLTLMDG-----------LKQRAHVIVMAATNRPNSIDPALR  358 (489)
T ss_dssp             HH---TCSEEEEEE-SHHHHCBCTTSCCCHHHHHHHHHHHHHHHH-----------SCTTSCEEEEEEESCGGGBCGGGG
T ss_pred             Hh---cCCcEEEec-chhhhccccccccchHHHHHHHHHHHHhhc-----------cccCCceEEEEecCCccccCHHHh
Confidence            22   234678888 33221              12223333331           122445667777777777788988


Q ss_pred             h--ceee-EEecccC
Q psy4734         327 S--RVGM-IYFELKC  338 (367)
Q Consensus       327 s--Rcg~-v~~~~~~  338 (367)
                      +  |+.. +++...+
T Consensus       359 r~gRf~~~i~i~~P~  373 (489)
T 3hu3_A          359 RFGRFDREVDIGIPD  373 (489)
T ss_dssp             STTSSCEEEECCCCC
T ss_pred             CCCcCceEEEeCCCC
Confidence            8  6654 6666544

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.19  E-value=0.014  Score=57.47  Aligned_cols=26  Identities=27%  Similarity=0.370  Sum_probs=22.9

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|++|.||||+|||++.+.+|..+
T Consensus       205 ~prGiLL~GPPGtGKT~lakAiA~~~  230 (428)
T 4b4t_K          205 PPRGVLLYGPPGTGKTMLVKAVANST  230 (428)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999988765

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.06  E-value=0.018  Score=48.75  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=20.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.+.|++||||||+.+.|++.++
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            477889999999999999987763

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=94.06  E-value=0.019  Score=49.01  Aligned_cols=22  Identities=45%  Similarity=0.584  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|++||||||+.+.|++.+
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            6678999999999999998766

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.06  E-value=0.02  Score=56.76  Aligned_cols=27  Identities=22%  Similarity=0.372  Sum_probs=23.2

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-..|++|.||||+|||++.+.+|..+
T Consensus       241 ~pprGILLyGPPGTGKTlLAkAiA~e~  267 (467)
T 4b4t_H          241 DPPKGILLYGPPGTGKTLCARAVANRT  267 (467)
T ss_dssp             CCCSEEEECSCTTSSHHHHHHHHHHHH
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            356899999999999999998887654

>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=94.06  E-value=0.021  Score=49.22  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++||+|+||||++++++..+.
T Consensus         3 i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            3 IIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45789999999999999998774

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=94.04  E-value=0.023  Score=49.74  Aligned_cols=24  Identities=29%  Similarity=0.333  Sum_probs=20.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.++||+||||||+.+.|+..+.
T Consensus        24 ~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           24 LVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             EEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            356789999999999999988775

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=94.04  E-value=0.018  Score=47.40  Aligned_cols=30  Identities=20%  Similarity=0.268  Sum_probs=23.2

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.........+++.||+|+|||++.+.++.
T Consensus        17 ~~~~a~~~~~vll~G~~GtGKt~lA~~i~~   46 (145)
T 3n70_A           17 LQQLSETDIAVWLYGAPGTGRMTGARYLHQ   46 (145)
T ss_dssp             HHHHTTCCSCEEEESSTTSSHHHHHHHHHH
T ss_pred             HHHHhCCCCCEEEECCCCCCHHHHHHHHHH
Confidence            333445666799999999999999887764

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.03  E-value=0.02  Score=49.61  Aligned_cols=23  Identities=26%  Similarity=0.445  Sum_probs=20.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.+.|++||||||+.+.|++.+
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            36778999999999999998876

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.99  E-value=0.019  Score=56.57  Aligned_cols=26  Identities=23%  Similarity=0.231  Sum_probs=22.5

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|++|.||||+|||.+.+.++..+
T Consensus       214 ~prGvLLyGPPGTGKTllAkAiA~e~  239 (434)
T 4b4t_M          214 APKGALMYGPPGTGKTLLARACAAQT  239 (434)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCCeeEEECcCCCCHHHHHHHHHHHh
Confidence            45789999999999999998887654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=93.95  E-value=0.021  Score=49.75  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=19.8

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+.++||+|+||||+++.|...+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            46788999999999999987654

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=93.92  E-value=0.02  Score=49.54  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||+.++|+..+
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            5678999999999999987653

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=93.92  E-value=0.02  Score=48.75  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
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            6678999999999999998765

>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=93.91  E-value=0.14  Score=49.20  Aligned_cols=24  Identities=25%  Similarity=0.498  Sum_probs=20.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.++||+||||||+++.|...+..
T Consensus       139 i~ivG~~GsGKTTll~~l~~~~~~  162 (372)
T 2ewv_A          139 ILVTGPTGSGKSTTIASMIDYINQ  162 (372)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhhcCc
Confidence            678899999999999998877653

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=93.87  E-value=0.023  Score=49.38  Aligned_cols=22  Identities=41%  Similarity=0.459  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||+.+.|+..+
T Consensus        32 i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           32 VVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            6678999999999999998766

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=93.87  E-value=0.014  Score=53.86  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=22.1

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ....|+.+.||+|+||||+.++++..
T Consensus        42 ~~~~GvlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           42 VTPAGVLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             CCCSEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            44577999999999999999988764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=93.87  E-value=0.021  Score=48.10  Aligned_cols=20  Identities=20%  Similarity=0.305  Sum_probs=17.8

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +++.|+|||||||+.+.|++
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            56789999999999998876

>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=93.78  E-value=0.019  Score=49.08  Aligned_cols=21  Identities=33%  Similarity=0.474  Sum_probs=18.1

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||+.+.|+..
T Consensus        12 i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           12 LLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            667899999999999988653

>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=93.75  E-value=0.025  Score=47.69  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||+.+.|+..+
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            6678999999999999988765

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=93.74  E-value=0.023  Score=51.26  Aligned_cols=26  Identities=27%  Similarity=0.427  Sum_probs=22.2

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...+++++||+|+|||++.+.++..+
T Consensus        44 ~~~~vll~G~~GtGKT~la~~la~~~   69 (257)
T 1lv7_A           44 IPKGVLMVGPPGTGKTLLAKAIAGEA   69 (257)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHc
Confidence            35679999999999999999987654

>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=93.73  E-value=0.023  Score=47.67  Aligned_cols=24  Identities=33%  Similarity=0.346  Sum_probs=20.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.+.|++||||||+.+.|++.++
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            367889999999999999988763

>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=93.71  E-value=0.033  Score=55.65  Aligned_cols=26  Identities=27%  Similarity=0.410  Sum_probs=21.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|++++||||+|||++.+.++...
T Consensus        48 ~p~gvLL~GppGtGKT~Laraia~~~   73 (476)
T 2ce7_A           48 MPKGILLVGPPGTGKTLLARAVAGEA   73 (476)
T ss_dssp             CCSEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            34679999999999999999887643

>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=93.65  E-value=0.016  Score=52.20  Aligned_cols=26  Identities=27%  Similarity=0.401  Sum_probs=21.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|+.++||+|+||||+.+.++..+
T Consensus        48 ~~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           48 IPKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             CCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            35678999999999999999887644

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=93.61  E-value=0.024  Score=48.20  Aligned_cols=23  Identities=35%  Similarity=0.381  Sum_probs=20.1

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.++
T Consensus         5 I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            5 AVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            67889999999999999988663

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=93.61  E-value=0.019  Score=47.76  Aligned_cols=25  Identities=20%  Similarity=0.436  Sum_probs=19.3

Q ss_pred             CCceEEEEcCCCChHhhhhhhhccC
Q psy4734         266 PDRKWIMFDGPIDAVWIENMNTVLD  290 (367)
Q Consensus       266 ~~~~wivfDG~~d~~wie~lnsvld  290 (367)
                      ...+.+|+||...+...+.+....+
T Consensus        76 ~~~~~vi~dg~~~~~~~~~l~~~~~  100 (179)
T 3lw7_A           76 SNHDLVVFDGVRSLAEVEEFKRLLG  100 (179)
T ss_dssp             CCCSCEEEECCCCHHHHHHHHHHHC
T ss_pred             cCCCeEEEeCCCCHHHHHHHHHHhC
Confidence            3457899999988888888877653

>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=93.61  E-value=0.028  Score=47.72  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=20.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+++.|++||||||+.+.|++.+
T Consensus        13 ~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           13 NILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEeCCCCCHHHHHHHHHHHh
Confidence            47788999999999999988765

>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=93.53  E-value=0.043  Score=48.13  Aligned_cols=26  Identities=12%  Similarity=0.171  Sum_probs=22.5

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ...+++.||+|+|||++.+.++..+.
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~~~   77 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACARAN   77 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            46688999999999999999887664

>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=93.49  E-value=0.029  Score=49.33  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=20.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++|++||||||+.+.|++.+
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            36688999999999999998866

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=93.49  E-value=0.029  Score=48.18  Aligned_cols=23  Identities=22%  Similarity=0.354  Sum_probs=19.9

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.++
T Consensus         3 I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            3 IAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEECCCccCHHHHHHHHHHhcC
Confidence            56789999999999999988763

>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=93.47  E-value=0.029  Score=50.38  Aligned_cols=25  Identities=24%  Similarity=0.339  Sum_probs=21.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .-+.++|++||||||+.+.|++.++
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3467889999999999999987663

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=93.46  E-value=0.041  Score=47.49  Aligned_cols=25  Identities=32%  Similarity=0.376  Sum_probs=21.7

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .++++.||+|+|||++.+.++..+.
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~   79 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELA   79 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            6789999999999999998887654

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=93.46  E-value=0.03  Score=48.44  Aligned_cols=23  Identities=22%  Similarity=0.244  Sum_probs=20.3

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.++
T Consensus         7 I~i~G~~GsGKsT~~~~L~~~l~   29 (213)
T 2plr_A            7 IAFEGIDGSGKSSQATLLKDWIE   29 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHh
Confidence            56789999999999999998775

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=93.43  E-value=0.023  Score=49.52  Aligned_cols=24  Identities=29%  Similarity=0.283  Sum_probs=20.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++||+||||||+.+.|++.+
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            346788999999999999988765

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.40  E-value=0.028  Score=47.12  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=21.3

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .-+.+.|++||||||+.+.|++.++
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3477889999999999999988763

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=93.40  E-value=0.052  Score=51.30  Aligned_cols=57  Identities=12%  Similarity=0.060  Sum_probs=36.4

Q ss_pred             hhHHHHHhhh--hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc
Q psy4734         173 PHLKKIFEVR--HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT  233 (367)
Q Consensus       173 ~~l~k~~~~~--~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t  233 (367)
                      ..+..++...  .++++.||||+|||++.+.++..+.......    +...+.+..+|...++
T Consensus        34 ~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~----~~~~~~~v~INc~~~~   92 (318)
T 3te6_A           34 LPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARK----ELPIFDYIHIDALELA   92 (318)
T ss_dssp             HHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTT----SSCCEEEEEEETTCCC
T ss_pred             HHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhc----cCCceEEEEEeccccC
Confidence            3455554433  3477889999999999999888776433211    1124566678876654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=93.38  E-value=0.032  Score=47.52  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=19.9

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.++
T Consensus         6 I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            6 VFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            66789999999999999987653

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=93.36  E-value=0.032  Score=48.80  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
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            5678999999999999998765

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=93.35  E-value=0.028  Score=48.52  Aligned_cols=22  Identities=23%  Similarity=0.262  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||+.+.|+..+
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            5678999999999999987654

>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=93.31  E-value=0.029  Score=47.99  Aligned_cols=20  Identities=30%  Similarity=0.428  Sum_probs=17.6

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.++||+||||||+.+.|+.
T Consensus         5 i~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            5 YIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHhc
Confidence            46789999999999999875

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=93.24  E-value=0.028  Score=48.17  Aligned_cols=24  Identities=21%  Similarity=0.357  Sum_probs=20.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.+.|++||||||+.+.|++.++
T Consensus        14 ~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           14 IIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            467789999999999999988763

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=93.22  E-value=0.034  Score=48.22  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=21.0

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||+.+.|++.++.
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            667899999999999999988753

>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=93.21  E-value=0.03  Score=49.06  Aligned_cols=22  Identities=23%  Similarity=0.229  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||+.+.|+..+
T Consensus        11 i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A           11 IVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHHST
T ss_pred             EEEECcCCCCHHHHHHHHHhhC
Confidence            5678999999999999887654

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=93.21  E-value=0.035  Score=46.30  Aligned_cols=23  Identities=30%  Similarity=0.417  Sum_probs=20.0

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.++
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            3 IYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEESCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            56789999999999999988763

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=93.18  E-value=0.022  Score=48.20  Aligned_cols=22  Identities=32%  Similarity=0.324  Sum_probs=15.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus         8 I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            8 IWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             EEEECCC----CHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            6678999999999999988765

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=93.16  E-value=0.033  Score=49.07  Aligned_cols=24  Identities=21%  Similarity=0.357  Sum_probs=20.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.+.|++||||||+.+.|++.++
T Consensus         7 ~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            7 KVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            367789999999999999988764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.12  E-value=0.034  Score=48.39  Aligned_cols=23  Identities=39%  Similarity=0.481  Sum_probs=19.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++||||||+.++|+..+.
T Consensus         9 i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            9 IGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            55789999999999999887663

>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=93.08  E-value=0.029  Score=52.18  Aligned_cols=129  Identities=19%  Similarity=0.299  Sum_probs=66.4

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ..+++++.||+|+|||++.+.++..+.              .....++...+. ..++|..    .    ..+..++..+
T Consensus        48 ~~~~vLL~Gp~GtGKT~la~ala~~~~--------------~~~i~v~~~~l~-~~~~g~~----~----~~~~~~f~~a  104 (301)
T 3cf0_A           48 PSKGVLFYGPPGCGKTLLAKAIANECQ--------------ANFISIKGPELL-TMWFGES----E----ANVREIFDKA  104 (301)
T ss_dssp             CCSEEEEECSSSSSHHHHHHHHHHHTT--------------CEEEEECHHHHH-HHHHTTC----T----THHHHHHHHH
T ss_pred             CCceEEEECCCCcCHHHHHHHHHHHhC--------------CCEEEEEhHHHH-hhhcCch----H----HHHHHHHHHH
Confidence            346799999999999999998876542              122234432221 2223321    1    1123333333


Q ss_pred             hcCCCCCceEEEEcCCCChHhhhhhhhccCC--------CCceeecccceeecCCCCeEEEecCCCCccCcchhh--cee
Q psy4734         261 AVSTTPDRKWIMFDGPIDAVWIENMNTVLDD--------NKKLCLINGEIIKMSNTMNLIFECENLEFASPATVS--RVG  330 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~wie~lnsvldd--------n~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvs--Rcg  330 (367)
                      ..   ..+..+++| ++|....+.=...-+.        +..|..-+|  +.-..++.+|.-|.......||.++  |+.
T Consensus       105 ~~---~~p~il~iD-Eid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~--~~~~~~v~vi~atn~~~~ld~al~r~gRf~  178 (301)
T 3cf0_A          105 RQ---AAPCVLFFD-ELDSIAKARGGNIGDGGGAADRVINQILTEMDG--MSTKKNVFIIGATNRPDIIDPAILRPGRLD  178 (301)
T ss_dssp             HH---TCSEEEEEC-STTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHS--SCTTSSEEEEEEESCGGGSCGGGGSTTSSC
T ss_pred             Hh---cCCeEEEEE-ChHHHhhccCCCcCCcchHHHHHHHHHHHHhhc--ccCCCCEEEEEecCCccccChHHhcCCccc
Confidence            21   235788888 6665432210000000        011111111  1123456677777777778888887  885


Q ss_pred             -eEEecccC
Q psy4734         331 -MIYFELKC  338 (367)
Q Consensus       331 -~v~~~~~~  338 (367)
                       .+++...+
T Consensus       179 ~~i~i~~p~  187 (301)
T 3cf0_A          179 QLIYIPLPD  187 (301)
T ss_dssp             EEEECCCCC
T ss_pred             eEEecCCcC
Confidence             66776544

>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=93.08  E-value=0.037  Score=48.05  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||+.+.|++.++.
T Consensus        12 I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A           12 IVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            667899999999999999988754

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=93.01  E-value=0.039  Score=47.77  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
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            6678999999999999998876

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.01  E-value=0.03  Score=55.05  Aligned_cols=26  Identities=23%  Similarity=0.325  Sum_probs=22.6

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|++|.||||+|||.+.+.+|..+
T Consensus       215 ~prGvLLyGPPGTGKTlLAkAiA~e~  240 (437)
T 4b4t_I          215 PPKGVILYGAPGTGKTLLAKAVANQT  240 (437)
T ss_dssp             CCSEEEEESSTTTTHHHHHHHHHHHH
T ss_pred             CCCCCceECCCCchHHHHHHHHHHHh
Confidence            45899999999999999998887654

>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=93.01  E-value=0.038  Score=48.58  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus         7 I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            7 MVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            5678999999999999998876

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=92.99  E-value=0.037  Score=46.99  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
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            6678999999999999998765

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=92.97  E-value=0.0078  Score=49.67  Aligned_cols=29  Identities=10%  Similarity=0.055  Sum_probs=21.9

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.........+++.||+|+|||++.+.++
T Consensus        20 ~~~~~~~~~~vll~G~~GtGKt~lA~~i~   48 (143)
T 3co5_A           20 VEAAAKRTSPVFLTGEAGSPFETVARYFH   48 (143)
T ss_dssp             HHHHHTCSSCEEEEEETTCCHHHHHGGGC
T ss_pred             HHHHhCCCCcEEEECCCCccHHHHHHHHH
Confidence            33344556779999999999999977654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=92.95  E-value=0.043  Score=46.84  Aligned_cols=24  Identities=38%  Similarity=0.378  Sum_probs=21.0

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.++|++||||||+.+.|+..+..
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            567899999999999999988753

>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=92.93  E-value=0.036  Score=48.45  Aligned_cols=22  Identities=27%  Similarity=0.446  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
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            6678999999999999987654

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=92.91  E-value=0.024  Score=51.89  Aligned_cols=26  Identities=27%  Similarity=0.401  Sum_probs=21.7

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|+.++||+|+||||+.+.++..+
T Consensus        72 ~~~gvll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           72 IPKGVLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCcChHHHHHHHHHHHc
Confidence            34578999999999999999887654

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=92.89  E-value=0.036  Score=49.06  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
T Consensus        26 ~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           26 LVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            6688999999999999988754

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=92.75  E-value=0.044  Score=46.61  Aligned_cols=23  Identities=30%  Similarity=0.300  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.+.
T Consensus         3 I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            3 IAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            46789999999999999998775

>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=92.75  E-value=0.041  Score=51.99  Aligned_cols=32  Identities=19%  Similarity=0.246  Sum_probs=24.5

Q ss_pred             CCCeEEEecCCCCccCcchhhceeeE-EecccC
Q psy4734         307 NTMNLIFECENLEFASPATVSRVGMI-YFELKC  338 (367)
Q Consensus       307 ~~~~~ifE~~~l~~asPatvsRcg~v-~~~~~~  338 (367)
                      +.+.++--++.....||+..+||+++ .+++..
T Consensus       149 ~~~~li~at~~~~~Ls~~l~sR~~l~~~Ld~~~  181 (334)
T 1in4_A          149 QPFTLVGATTRSGLLSSPLRSRFGIILELDFYT  181 (334)
T ss_dssp             CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCC
T ss_pred             CCeEEEEecCCcccCCHHHHHhcCceeeCCCCC
Confidence            35667777777888999999999864 577654

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=92.75  E-value=0.032  Score=50.57  Aligned_cols=23  Identities=43%  Similarity=0.434  Sum_probs=20.0

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+||||||+.+.|++.+
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            46788999999999999999654

>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=92.73  E-value=0.035  Score=48.59  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
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            5678999999999999987654

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=92.70  E-value=0.044  Score=49.75  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||+.+.|++.+
T Consensus         4 i~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            4 HLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHhcC
Confidence            5678999999999999988765

>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=92.65  E-value=0.028  Score=48.84  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=20.3

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++||||||+.+.|++.+.
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            56789999999999999988775

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=92.56  E-value=0.05  Score=45.27  Aligned_cols=26  Identities=23%  Similarity=0.181  Sum_probs=21.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ...+.++||+|+|||++.++++..+.
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~   61 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQAL   61 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34577899999999999999887664

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=92.56  E-value=0.035  Score=49.12  Aligned_cols=23  Identities=17%  Similarity=0.304  Sum_probs=19.9

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.+.|++||||||+.+.|++.+
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            36778999999999999998765

>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=92.55  E-value=0.043  Score=48.90  Aligned_cols=23  Identities=26%  Similarity=0.225  Sum_probs=19.5

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||++++|...+
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            46678999999999999987654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=92.55  E-value=0.045  Score=50.34  Aligned_cols=23  Identities=48%  Similarity=0.475  Sum_probs=20.1

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .++++||+|+||||++++|....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36789999999999999998765

>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=92.54  E-value=0.047  Score=46.74  Aligned_cols=21  Identities=24%  Similarity=0.420  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++|++||||||+.+.|++.
T Consensus        13 I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           13 ILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            678899999999999999876

>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=92.51  E-value=0.05  Score=48.02  Aligned_cols=22  Identities=32%  Similarity=0.371  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||+|..+.|++.+
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            4677999999999999988765

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=92.47  E-value=0.047  Score=47.81  Aligned_cols=22  Identities=23%  Similarity=0.466  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
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            5678999999999999998866

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=92.45  E-value=0.052  Score=49.66  Aligned_cols=24  Identities=25%  Similarity=0.498  Sum_probs=20.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.++||+||||||+++++...+..
T Consensus        28 v~i~Gp~GsGKSTll~~l~g~~~~   51 (261)
T 2eyu_A           28 ILVTGPTGSGKSTTIASMIDYINQ   51 (261)
T ss_dssp             EEEECSTTCSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHhCCC
Confidence            667899999999999998877643

>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=92.44  E-value=0.052  Score=45.99  Aligned_cols=23  Identities=35%  Similarity=0.368  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++||||||+.+.|+..+.
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            56789999999999999998764

>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=92.42  E-value=0.047  Score=49.69  Aligned_cols=26  Identities=19%  Similarity=0.272  Sum_probs=22.0

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..++++|.||+|+|||++.+.++..+
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~~   88 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEES   88 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            34679999999999999999888763

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=92.40  E-value=0.045  Score=50.77  Aligned_cols=22  Identities=18%  Similarity=0.318  Sum_probs=18.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||+.+.|++.+
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            6678999999999999887654

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=92.39  E-value=0.052  Score=48.09  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
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            5678999999999999998876

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=92.37  E-value=0.047  Score=47.45  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=18.3

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      .+.++||+|+||||+.+.|.+.
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            3678999999999998877554

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=92.27  E-value=0.043  Score=48.69  Aligned_cols=22  Identities=32%  Similarity=0.247  Sum_probs=13.3

Q ss_pred             heeccccCCCchhhHHHHH-HHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA-DSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~-~al  206 (367)
                      +.++||+||||||+.++|+ ..+
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            5678999999999999988 654

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=92.23  E-value=0.047  Score=48.43  Aligned_cols=24  Identities=17%  Similarity=0.184  Sum_probs=20.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++++.||||+|||+....|++.+
T Consensus        59 n~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           59 NCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999988887765

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=92.22  E-value=0.053  Score=47.71  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=19.8

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|++||||||+.+.|++.+
T Consensus         8 I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            8 LILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6678999999999999998876

>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=92.17  E-value=0.049  Score=45.93  Aligned_cols=22  Identities=23%  Similarity=0.327  Sum_probs=19.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||.|+||||++++++..+
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            6688999999999999998876

>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=92.11  E-value=0.052  Score=48.31  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=20.9

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.|.|++||||||+.+.|++.++
T Consensus        18 ~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           18 RAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            477889999999999999988763

>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=92.07  E-value=0.064  Score=46.88  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=20.6

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|+..+.
T Consensus        28 i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           28 IWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            66789999999999999998876

>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=92.05  E-value=0.04  Score=47.49  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus         7 I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            7 IVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             EEEECCTTSSHHHHHHHHHHTS
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Confidence            5678999999999999988765

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=92.03  E-value=0.047  Score=49.40  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=19.7

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -++++|++||||||+.+.|++.+
T Consensus        34 ~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           34 AILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             EEEEESCGGGTTHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            36788999999999999988765

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=91.99  E-value=0.049  Score=47.04  Aligned_cols=23  Identities=26%  Similarity=0.367  Sum_probs=19.6

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.+.|++||||||+.+.|++.+
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            36778999999999999988764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=91.88  E-value=0.071  Score=46.31  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.5

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++||+|+||||++++++..+.
T Consensus         4 i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            4 VFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             EEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCChHHHHHHHHHhhcc
Confidence            56889999999999999998775

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=91.86  E-value=0.065  Score=47.76  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||+|..+.|++.+
T Consensus        32 I~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5677999999999999988765

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=91.85  E-value=0.049  Score=46.15  Aligned_cols=17  Identities=29%  Similarity=0.460  Sum_probs=15.2

Q ss_pred             heeccccCCCchhhHHH
Q psy4734         185 LMVVGESFGGKTTAYQT  201 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~  201 (367)
                      +.++||+||||||++++
T Consensus        12 ~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           12 VVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEECCTTSCHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHH
Confidence            56789999999999994

>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=91.82  E-value=0.06  Score=47.28  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=19.1

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+|+||||+.+.|....
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            36678999999999999887643

>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=91.79  E-value=0.056  Score=46.84  Aligned_cols=20  Identities=30%  Similarity=0.298  Sum_probs=17.7

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.++|++||||||+.+.|+.
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            56789999999999999876

>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=91.78  E-value=0.066  Score=50.03  Aligned_cols=25  Identities=20%  Similarity=0.271  Sum_probs=21.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .++++.||+|+|||++.+.++..+.
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~~~~   62 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGNEAK   62 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHH
Confidence            5788999999999999999887664

>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=91.73  E-value=0.068  Score=48.07  Aligned_cols=22  Identities=27%  Similarity=0.289  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus        32 I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           32 YIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6778999999999999998765

>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=91.71  E-value=0.24  Score=50.55  Aligned_cols=27  Identities=22%  Similarity=0.279  Sum_probs=21.2

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ..-+++.|+||+||||++..+...+..
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~  230 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAES  230 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            344667799999999999888876653

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=91.68  E-value=0.07  Score=47.91  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.0

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +-+.||+||||||+.++|+..++
T Consensus        28 igI~G~~GsGKSTl~k~L~~~lG   50 (245)
T 2jeo_A           28 IGVSGGTASGKSTVCEKIMELLG   50 (245)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            55789999999999999988764

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=91.66  E-value=0.062  Score=48.91  Aligned_cols=25  Identities=36%  Similarity=0.388  Sum_probs=21.6

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..+.++|++||||||+.+.|+..++
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3578899999999999999998763

>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=91.51  E-value=0.063  Score=46.38  Aligned_cols=20  Identities=25%  Similarity=0.293  Sum_probs=18.0

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.++|++||||||+.+.|+.
T Consensus         4 i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            4 IGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHH
Confidence            56789999999999999887

>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=91.43  E-value=0.054  Score=48.70  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
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            6688999999999999877543

>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=91.41  E-value=0.08  Score=49.59  Aligned_cols=25  Identities=32%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      -+.++||+||||||+++.|+..+..
T Consensus       104 vi~lvG~nGsGKTTll~~Lagll~~  128 (304)
T 1rj9_A          104 VVLVVGVNGVGKTTTIAKLGRYYQN  128 (304)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4678899999999999999877653

>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=91.41  E-value=0.079  Score=49.79  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=20.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.++||+||||||+.++|+..+..
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            557899999999999999887754

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=91.27  E-value=0.074  Score=45.83  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
T Consensus         5 i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            5 VTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            5678999999999999998865

>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=91.21  E-value=0.075  Score=52.50  Aligned_cols=25  Identities=24%  Similarity=0.341  Sum_probs=22.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ++++|.||||+|||++.+.++..++
T Consensus        64 ~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           64 RAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEECCCcCCHHHHHHHHHHHhC
Confidence            5799999999999999999998875

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=91.15  E-value=0.078  Score=46.77  Aligned_cols=22  Identities=23%  Similarity=0.063  Sum_probs=19.2

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      -+.++||+||||||++++++..
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3668899999999999998875

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=91.12  E-value=0.082  Score=45.89  Aligned_cols=23  Identities=39%  Similarity=0.397  Sum_probs=20.1

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|+..+.
T Consensus        25 i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A           25 LGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            56789999999999999988764

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=91.04  E-value=0.078  Score=50.50  Aligned_cols=22  Identities=27%  Similarity=0.377  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+|||++...|++.+
T Consensus        43 IvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           43 LVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             EEEECSTTSSHHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
Confidence            6678999999999998888765

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=90.93  E-value=0.095  Score=49.03  Aligned_cols=25  Identities=44%  Similarity=0.603  Sum_probs=21.5

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      -+.++||+|+||||+++.|+..+..
T Consensus       102 vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A          102 VIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4678899999999999999987753

>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=90.91  E-value=0.22  Score=48.01  Aligned_cols=117  Identities=17%  Similarity=0.232  Sum_probs=72.2

Q ss_pred             HHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecc---cccccc
Q psy4734         177 KIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDS---ASHEWR  249 (367)
Q Consensus       177 k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~---~~~~W~  249 (367)
                      ++-.....+++.|++|+||+++.+.+...    ....       .-....+|+.+++    -.+|||.-..   ....+.
T Consensus       155 ~~a~~~~~vli~Ge~GtGK~~lAr~ih~~----s~r~-------~~~fv~v~~~~~~~~~~~~elfg~~~g~~tga~~~~  223 (387)
T 1ny5_A          155 KISCAECPVLITGESGVGKEVVARLIHKL----SDRS-------KEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSSK  223 (387)
T ss_dssp             HHTTCCSCEEEECSTTSSHHHHHHHHHHH----STTT-------TSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSCB
T ss_pred             HhcCCCCCeEEecCCCcCHHHHHHHHHHh----cCCC-------CCCeEEEecCCCCHHHHHHHhcCCCCCCCCCccccc
Confidence            33445566889999999999987765543    2211       1124457877775    4578886321   111245


Q ss_pred             cchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecC
Q psy4734         250 DGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECE  316 (367)
Q Consensus       250 dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~  316 (367)
                      .|.+..+          +.-.+++|  |.++..--..|-.+|++...-.+.+.  -..+.++|+|+-|.
T Consensus       224 ~g~~~~a----------~~gtlfldei~~l~~~~q~~Ll~~l~~~~~~~~g~~--~~~~~~~rii~at~  280 (387)
T 1ny5_A          224 EGFFELA----------DGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGR--KEIEVNVRILAATN  280 (387)
T ss_dssp             CCHHHHT----------TTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCC--SBEECCCEEEEEES
T ss_pred             CCceeeC----------CCcEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCC--ceeeccEEEEEeCC
Confidence            5654332          12478899  66777777778888877655544333  34556789988765

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=90.89  E-value=0.078  Score=47.87  Aligned_cols=24  Identities=17%  Similarity=0.247  Sum_probs=19.3

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++||+||||||++++++..+
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            345678999999999999977543

>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=90.88  E-value=0.094  Score=47.24  Aligned_cols=23  Identities=30%  Similarity=0.317  Sum_probs=19.9

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.+.||+||||||+.+.|++.+
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            36678999999999999998765

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=90.79  E-value=0.058  Score=46.15  Aligned_cols=25  Identities=36%  Similarity=0.375  Sum_probs=21.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .+.++|++||||||+.+.|...+..
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh
Confidence            4668899999999999999887753

>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=90.75  E-value=0.11  Score=49.34  Aligned_cols=25  Identities=40%  Similarity=0.432  Sum_probs=21.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      -+.++||+|+||||+++.|+..+..
T Consensus       131 vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          131 VIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3678899999999999999987643

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=90.71  E-value=0.065  Score=47.77  Aligned_cols=22  Identities=27%  Similarity=0.234  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
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            5678999999999999877543

>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=90.65  E-value=0.41  Score=45.86  Aligned_cols=154  Identities=17%  Similarity=0.198  Sum_probs=94.2

Q ss_pred             HHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecc---ccccc
Q psy4734         176 KKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDS---ASHEW  248 (367)
Q Consensus       176 ~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~---~~~~W  248 (367)
                      .++-.....+++.|++|+||+.+.+.+..    ......      .  ...+|+.+++    ..+|||.-..   ....+
T Consensus       146 ~~~a~~~~~vli~GesGtGKe~lAr~ih~----~s~r~~------~--fv~vnc~~~~~~~~~~~lfg~~~g~~tga~~~  213 (368)
T 3dzd_A          146 PKIAKSKAPVLITGESGTGKEIVARLIHR----YSGRKG------A--FVDLNCASIPQELAESELFGHEKGAFTGALTR  213 (368)
T ss_dssp             HHHHTSCSCEEEECCTTSSHHHHHHHHHH----HHCCCS------C--EEEEESSSSCTTTHHHHHHEECSCSSSSCCCC
T ss_pred             hhhhccchhheEEeCCCchHHHHHHHHHH----hccccC------C--cEEEEcccCChHHHHHHhcCccccccCCcccc
Confidence            33445566788999999999988776543    322211      1  5567777765    4568886421   11346


Q ss_pred             ccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-CC------
Q psy4734         249 RDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-LE------  319 (367)
Q Consensus       249 ~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-l~------  319 (367)
                      +.|.+..+          +.--+++|  |.+++..-..|-.+|++.....+.+...  .+-++|+|+-|+. +.      
T Consensus       214 ~~g~~~~a----------~~gtlfldei~~l~~~~Q~~Ll~~l~~~~~~~~g~~~~--~~~~~rii~at~~~l~~~v~~g  281 (368)
T 3dzd_A          214 KKGKLELA----------DQGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQK--IEVDIRVISATNKNLEEEIKKG  281 (368)
T ss_dssp             EECHHHHT----------TTSEEEEETGGGSCHHHHHHHHHHHHHSEECCBTCCCB--EECCCEEEEEESSCHHHHHHTT
T ss_pred             cCChHhhc----------CCCeEEecChhhCCHHHHHHHHHHHHhCCcccCCCCcc--eeeeeEEEEecCCCHHHHHHcC
Confidence            67766422          11248888  6778888888888888776666655443  4457999998763 21      


Q ss_pred             ccCcchhhceeeEEe--cccC---CchHHHHHHHHHHhh
Q psy4734         320 FASPATVSRVGMIYF--ELKC---ISWTTFFLSYQNELK  353 (367)
Q Consensus       320 ~asPatvsRcg~v~~--~~~~---~~~~~~~~swl~~~~  353 (367)
                      .-.+....|+..+.+  .|-.   =.-..++..+++...
T Consensus       282 ~fr~dL~~rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~  320 (368)
T 3dzd_A          282 NFREDLYYRLSVFQIYLPPLRERGKDVILLAEYFLKKFA  320 (368)
T ss_dssp             SSCHHHHHHHTSEEEECCCGGGSTTHHHHHHHHHHHHHH
T ss_pred             CccHHHHHHhCCeEEeCCChhhchhhHHHHHHHHHHHHH
Confidence            233467788877654  3321   123456666666543

>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=90.55  E-value=0.1  Score=46.53  Aligned_cols=24  Identities=25%  Similarity=0.293  Sum_probs=20.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||..+.|++.+..
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            556799999999999999987753

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=90.43  E-value=0.13  Score=51.86  Aligned_cols=32  Identities=31%  Similarity=0.386  Sum_probs=24.2

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.-++.....+.++||+||||||++++|...+
T Consensus       253 l~~~v~~g~~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          253 LWLAIEHKFSAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             HHHHHHTTCCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             HHHHHhCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            44445556668889999999999998876544

>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=90.43  E-value=0.086  Score=46.06  Aligned_cols=22  Identities=41%  Similarity=0.294  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||+++.++..+
T Consensus        28 ~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           28 TEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6678999999999999987643

>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=90.41  E-value=0.07  Score=48.10  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.1

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||+.+.|++.++
T Consensus        25 I~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           25 IGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            66789999999999999988764

>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=90.41  E-value=0.13  Score=44.00  Aligned_cols=26  Identities=27%  Similarity=0.274  Sum_probs=21.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ..+.++|++||||||+...|...+..
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~~   30 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAVR   30 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhHh
Confidence            34678899999999999998887753

>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=90.24  E-value=0.12  Score=48.60  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=20.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.++||+||||||++++|+..+
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhhhc
Confidence            447789999999999999998876

>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=90.23  E-value=0.1  Score=45.62  Aligned_cols=20  Identities=30%  Similarity=0.405  Sum_probs=17.8

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.+.|++||||||+.+.|++
T Consensus         7 I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            7 VALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            56789999999999999876

>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=90.23  E-value=0.098  Score=44.85  Aligned_cols=22  Identities=23%  Similarity=0.147  Sum_probs=18.9

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      -+.++|++||||||+.+.|++.
T Consensus        10 ~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A           10 IIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
Confidence            3667899999999999998864

>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=90.20  E-value=0.082  Score=47.56  Aligned_cols=21  Identities=29%  Similarity=0.368  Sum_probs=17.9

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||++++++..
T Consensus        34 ~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           34 VAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            667899999999999987644

>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=90.15  E-value=0.084  Score=45.80  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||+.+.|+..+
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            5678999999999999887644

>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=90.13  E-value=0.083  Score=48.77  Aligned_cols=22  Identities=27%  Similarity=0.395  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        37 ~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           37 TAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6678999999999999877543

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=90.12  E-value=0.092  Score=50.42  Aligned_cols=22  Identities=41%  Similarity=0.439  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        33 ~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           33 LFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            5678999999999999987543

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=90.10  E-value=0.084  Score=48.27  Aligned_cols=22  Identities=23%  Similarity=0.265  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        35 ~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           35 ISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5678999999999999877543

>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=90.03  E-value=0.14  Score=43.83  Aligned_cols=25  Identities=32%  Similarity=0.167  Sum_probs=20.7

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .-+.++|++|+||||+++.|...+.
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            3466889999999999999887664

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=90.01  E-value=0.12  Score=47.91  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=17.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||+.+.|++.++.
T Consensus         8 IgItG~sGSGKSTva~~L~~~lg~   31 (290)
T 1a7j_A            8 ISVTGSSGAGTSTVKHTFDQIFRR   31 (290)
T ss_dssp             EEEESCC---CCTHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            557799999999999999987764

>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=90.01  E-value=0.35  Score=48.60  Aligned_cols=59  Identities=10%  Similarity=0.020  Sum_probs=39.5

Q ss_pred             eeecchHHHHHHHHhcCCcc--cchhhHH----HHHh--hh--hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         150 FFFLSNDELLEILSETKDPL--RVQPHLK----KIFE--VR--HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       150 f~f~s~~~Ll~ils~~~~~~--~lq~~l~----k~~~--~~--~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +..+|-..+.+.+.++..+.  ..-+...    +.+.  ..  ..+.|.|.+||||||+.+.|++.|..
T Consensus       353 ~~~iSgt~IR~~Lr~G~~~P~~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          353 TLNISGTELRRRLRVGGEIPEWFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             CBCCCHHHHHHHHHHTCCCCTTTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ccccCHHHHHHHHhCCCCCCccccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            34566677888888887762  2223333    3231  11  23667899999999999999998864

>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=90.00  E-value=0.13  Score=47.81  Aligned_cols=24  Identities=17%  Similarity=0.274  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.++|++||||||+.+.|+..+..
T Consensus        34 i~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           34 IFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhh
Confidence            557799999999999999988865

>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=89.99  E-value=0.088  Score=46.71  Aligned_cols=21  Identities=29%  Similarity=0.233  Sum_probs=18.0

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||++++++..
T Consensus        38 ~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           38 VNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            567899999999999987654

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=89.98  E-value=0.087  Score=47.95  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        36 ~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           36 TLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999977543

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=89.95  E-value=0.16  Score=51.68  Aligned_cols=56  Identities=25%  Similarity=0.274  Sum_probs=35.9

Q ss_pred             ecchHHHHHHHHhcCCcc-cch-hhHHHHHh------hhhh--heeccccCCCchhhHHHHHHHHH
Q psy4734         152 FLSNDELLEILSETKDPL-RVQ-PHLKKIFE------VRHG--LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       152 f~s~~~Ll~ils~~~~~~-~lq-~~l~k~~~------~~~~--v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+|-.++.+.+..+..+. ... ++..+...      ...|  +.++|++||||||+.++|+..+.
T Consensus       329 ~isgt~ir~~Lr~G~~~p~~f~~peV~~vLR~~~~~~~~~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          329 TLSGEEFQRRMRAGLKIPEWYSFPEVLAELHRQTPPRERQGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             CCCHHHHHHHHTTTCCCCTTTSCHHHHHHHHHHSCCGGGSCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHhcCCCCCccccccchhhhhhhhcccccccceEEEEECCCCChHHHHHHHHHHhhc
Confidence            345566777887776542 111 22222211      2233  66889999999999999998875

>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=89.88  E-value=0.12  Score=48.30  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=19.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++||||||+.++|+..+.
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            56789999999999999887664

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=89.83  E-value=0.09  Score=48.22  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||+||||||++++++..+
T Consensus        40 ~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           40 VAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            5678999999999999877543

>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=89.78  E-value=0.11  Score=44.01  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..++||+||||||+++++.-++.
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            45789999999999998877664

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=89.77  E-value=0.093  Score=47.53  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=18.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        38 ~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           38 IGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5678999999999999977543

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=89.75  E-value=0.11  Score=47.03  Aligned_cols=21  Identities=29%  Similarity=0.313  Sum_probs=18.2

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||++++++..
T Consensus        32 ~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           32 HALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            567899999999999998764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=89.73  E-value=0.15  Score=48.87  Aligned_cols=32  Identities=28%  Similarity=0.495  Sum_probs=23.7

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.-.+.....+.++||+||||||++++|...+
T Consensus       168 l~~~i~~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          168 LRRAVQLERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             HHHHHHTTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             HHHHHhcCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            33344455567788999999999999876544

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=89.73  E-value=0.094  Score=47.22  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        35 ~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           35 VTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999987543

>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=89.71  E-value=0.14  Score=44.55  Aligned_cols=22  Identities=27%  Similarity=0.347  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|.+||||||+.+.|++.+
T Consensus        15 IgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           15 IGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhc
Confidence            5577999999999999998764

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=89.68  E-value=0.095  Score=47.25  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=18.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        31 ~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           31 IAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6678999999999999977543

>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=89.67  E-value=0.11  Score=50.27  Aligned_cols=22  Identities=32%  Similarity=0.333  Sum_probs=18.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        32 ~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           32 VVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHcCC
Confidence            5678999999999999987544

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=89.66  E-value=0.13  Score=48.52  Aligned_cols=23  Identities=26%  Similarity=0.341  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.||+||||||+.+.|+..+.
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            55779999999999999887664

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=89.64  E-value=0.11  Score=47.50  Aligned_cols=21  Identities=33%  Similarity=0.376  Sum_probs=18.3

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||++++++..
T Consensus        49 ~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           49 HAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            567899999999999998764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=89.62  E-value=0.18  Score=47.18  Aligned_cols=26  Identities=27%  Similarity=0.402  Sum_probs=22.5

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..++++.||+|+|||++...++..+.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH
Confidence            46799999999999999998887664

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=89.56  E-value=0.11  Score=49.68  Aligned_cols=22  Identities=32%  Similarity=0.305  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        44 ~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           44 VGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5678999999999999987543

>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=89.54  E-value=0.12  Score=47.46  Aligned_cols=21  Identities=19%  Similarity=0.292  Sum_probs=18.3

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +++.|+|||||||+.+.|++.
T Consensus         5 I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            5 ILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            567899999999999988763

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=89.53  E-value=0.14  Score=49.07  Aligned_cols=25  Identities=44%  Similarity=0.603  Sum_probs=21.5

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      -+.++||+|+||||+++.|+..+..
T Consensus       159 vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          159 VIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCChHHHHHHHHHhhccc
Confidence            3678899999999999999987753

>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=89.53  E-value=0.11  Score=51.27  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=22.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+++++.||||+|||++.+.|+..+
T Consensus        50 ~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           50 PKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHc
Confidence            3679999999999999999988765

>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=89.48  E-value=0.12  Score=49.69  Aligned_cols=22  Identities=36%  Similarity=0.360  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           32 VALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHCCC
Confidence            5678999999999999987543

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=89.47  E-value=0.1  Score=47.85  Aligned_cols=22  Identities=32%  Similarity=0.315  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        53 ~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           53 VVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCCCcHHHHHHHHHcCC
Confidence            5678999999999999877543

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=89.40  E-value=0.12  Score=49.68  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           32 MALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            5678999999999999987543

>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=89.39  E-value=0.14  Score=50.41  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=22.3

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+++++.||+|+|||++.+.++..+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~  155 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVV  155 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            35689999999999999999887664

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=89.35  E-value=0.1  Score=46.56  Aligned_cols=21  Identities=29%  Similarity=0.379  Sum_probs=17.9

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||++++++..
T Consensus        37 ~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           37 LAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            567899999999999987654

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=89.34  E-value=0.1  Score=47.53  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
T Consensus        44 ~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           44 FGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5678999999999999977543

>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=89.29  E-value=0.3  Score=46.25  Aligned_cols=38  Identities=26%  Similarity=0.309  Sum_probs=26.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCC
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS  231 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka  231 (367)
                      +.++|++|+||||+++.|+..+....         .+|.+...+|.+
T Consensus        59 i~i~G~~g~GKSTl~~~l~~~~~~~~---------~~v~v~~~d~~~   96 (341)
T 2p67_A           59 LGVTGTPGAGKSTFLEAFGMLLIREG---------LKVAVIAVDPSS   96 (341)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTT---------CCEEEEEECCC-
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhcC---------CeEEEEeecCCc
Confidence            66789999999999999987765432         245555555544

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=89.21  E-value=0.11  Score=47.46  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
T Consensus        49 ~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           49 CALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhccC
Confidence            6688999999999999987654

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=89.17  E-value=0.13  Score=49.67  Aligned_cols=22  Identities=32%  Similarity=0.406  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           32 MILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCcHHHHHHHHHHcCC
Confidence            5678999999999999987543

>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=89.14  E-value=0.13  Score=49.66  Aligned_cols=22  Identities=36%  Similarity=0.410  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        40 ~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           40 LVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5678999999999999987543

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=89.13  E-value=0.11  Score=47.74  Aligned_cols=22  Identities=27%  Similarity=0.297  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
T Consensus        48 ~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           48 TALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6678999999999999987543

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=89.06  E-value=0.16  Score=44.15  Aligned_cols=23  Identities=22%  Similarity=0.134  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.||+|+||||+.+.++..+.
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            66789999999999999886554

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=89.00  E-value=0.11  Score=47.91  Aligned_cols=22  Identities=27%  Similarity=0.228  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++|+..+
T Consensus        50 ~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           50 WILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5678999999999999977543

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=88.88  E-value=0.12  Score=46.96  Aligned_cols=22  Identities=32%  Similarity=0.380  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        29 ~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           29 LHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5678999999999999987544

>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=88.81  E-value=0.19  Score=47.14  Aligned_cols=26  Identities=42%  Similarity=0.469  Sum_probs=22.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .-++++|++|+||||+...|+..+..
T Consensus       105 ~vi~ivG~~GsGKTTl~~~LA~~l~~  130 (306)
T 1vma_A          105 FVIMVVGVNGTGKTTSCGKLAKMFVD  130 (306)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCChHHHHHHHHHHHHHh
Confidence            34778899999999999999987753

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=88.74  E-value=0.12  Score=46.88  Aligned_cols=22  Identities=32%  Similarity=0.333  Sum_probs=18.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        34 ~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           34 LAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999876543

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=88.69  E-value=0.12  Score=47.22  Aligned_cols=22  Identities=36%  Similarity=0.519  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        36 ~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           36 LLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5678999999999999977543

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=88.68  E-value=0.14  Score=49.81  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        50 ~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           50 VGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             EEEEESTTSSHHHHHHHHHTCS
T ss_pred             EEEECCCCChHHHHHHHHhCCC
Confidence            6678999999999999987643

>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=88.63  E-value=0.17  Score=49.57  Aligned_cols=33  Identities=24%  Similarity=0.478  Sum_probs=24.1

Q ss_pred             HHHHHhhhhh-heeccccCCCchhhHHHHHHHHH
Q psy4734         175 LKKIFEVRHG-LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       175 l~k~~~~~~~-v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +..++....+ +.++||+||||||+++++...+.
T Consensus       159 L~~l~~~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          159 FRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             HHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             HHHHHHhcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            5555444444 56779999999999999876653

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=88.62  E-value=0.19  Score=44.97  Aligned_cols=25  Identities=32%  Similarity=0.329  Sum_probs=18.2

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.|.|++||||||..+.|++.+...
T Consensus        28 I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           28 ITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             EEEECCC---CHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhh
Confidence            4566999999999999999888653

>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=88.61  E-value=0.19  Score=44.35  Aligned_cols=24  Identities=29%  Similarity=0.401  Sum_probs=20.4

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.|.|++||||||..+.|++.+..
T Consensus         9 i~~eG~~gsGKsT~~~~l~~~l~~   32 (213)
T 4edh_A            9 VTLEGPEGAGKSTNRDYLAERLRE   32 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            445699999999999999988864

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=88.58  E-value=0.14  Score=51.32  Aligned_cols=26  Identities=27%  Similarity=0.401  Sum_probs=21.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|++|+||+|+|||++.+.++..+
T Consensus        63 ip~GvLL~GppGtGKTtLaraIa~~~   88 (499)
T 2dhr_A           63 IPKGVLLVGPPGVGKTHLARAVAGEA   88 (499)
T ss_dssp             CCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            35679999999999999999887643

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=88.54  E-value=0.18  Score=50.41  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=20.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -++++|++|+||||+++.|+..+.
T Consensus       295 VI~LVGpNGSGKTTLl~~LAgll~  318 (503)
T 2yhs_A          295 VILMVGVNGVGKTTTIGKLARQFE  318 (503)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCcccHHHHHHHHHHHhh
Confidence            367889999999999999987764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=88.41  E-value=0.19  Score=44.62  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|++||||||+.+.|++.+
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            6678999999999999998765

>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=88.36  E-value=0.11  Score=49.67  Aligned_cols=21  Identities=24%  Similarity=0.366  Sum_probs=18.1

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||++++++..
T Consensus        29 ~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           29 FVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             EEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEECCCCccHHHHHHHHHcC
Confidence            567899999999999998754

>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=88.29  E-value=0.19  Score=46.76  Aligned_cols=40  Identities=20%  Similarity=0.149  Sum_probs=28.1

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS  231 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka  231 (367)
                      -++++|++|+||||+...|+..+..-.        +.+|.+...++-.
T Consensus       107 vi~lvG~~GsGKTTl~~~LA~~l~~~~--------G~~V~lv~~D~~r  146 (296)
T 2px0_A          107 YIVLFGSTGAGKTTTLAKLAAISMLEK--------HKKIAFITTDTYR  146 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--------CCCEEEEECCCSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhc--------CCEEEEEecCccc
Confidence            467889999999999999998775311        2356555555543

>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=88.27  E-value=0.17  Score=47.53  Aligned_cols=26  Identities=19%  Similarity=0.286  Sum_probs=21.9

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.+++.||+|+|||++++.++..+.
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~~~~   70 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLSKLH   70 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            34688899999999999999887664

>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=88.18  E-value=0.17  Score=47.86  Aligned_cols=29  Identities=21%  Similarity=0.340  Sum_probs=22.1

Q ss_pred             HHhhhhhheeccccCCCchhhHHHHHHHH
Q psy4734         178 IFEVRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       178 ~~~~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+.....+.++||+||||||++++|...+
T Consensus       167 ~i~~g~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          167 GIAIGKNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             HHHHTCCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             hccCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34445557789999999999998876543

>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=88.12  E-value=0.17  Score=43.14  Aligned_cols=21  Identities=19%  Similarity=0.368  Sum_probs=17.6

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      -+.++|++|+||||+++.+..
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~   51 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTR   51 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHhc
Confidence            467889999999999887653

>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=88.11  E-value=0.19  Score=43.08  Aligned_cols=21  Identities=19%  Similarity=0.368  Sum_probs=17.6

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      -+.++|++|+||||+++.+..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~   27 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTR   27 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHhc
Confidence            467889999999999887653

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=88.08  E-value=0.16  Score=48.07  Aligned_cols=23  Identities=35%  Similarity=0.563  Sum_probs=19.8

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+||||||+.+.|++.+
T Consensus         7 ~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            36778999999999999988765

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=88.07  E-value=0.25  Score=46.01  Aligned_cols=29  Identities=21%  Similarity=0.382  Sum_probs=21.6

Q ss_pred             HHHHHhhhhh--heeccccCCCchhhHHHHH
Q psy4734         175 LKKIFEVRHG--LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       175 l~k~~~~~~~--v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++++...+  +.++||+|+||||++++|.
T Consensus       156 i~~L~~~l~G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLEGFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTTTCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhccCcEEEEECCCCCCHHHHHHHHH
Confidence            4445544444  6678999999999999876

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=88.04  E-value=0.14  Score=46.79  Aligned_cols=22  Identities=27%  Similarity=0.501  Sum_probs=18.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        33 ~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           33 VIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5678999999999999987544

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=87.84  E-value=0.15  Score=48.69  Aligned_cols=24  Identities=21%  Similarity=0.362  Sum_probs=20.1

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++|++||||||++++|+..+
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            346788999999999999988754

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=87.76  E-value=0.23  Score=43.90  Aligned_cols=25  Identities=28%  Similarity=0.464  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.|.|++||||||..+.|++.+...
T Consensus         6 i~~eG~~gsGKsT~~~~l~~~l~~~   30 (213)
T 4tmk_A            6 IVIEGLEGAGKTTARNVVVETLEQL   30 (213)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4566999999999999999888643

>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=87.73  E-value=0.18  Score=48.50  Aligned_cols=21  Identities=29%  Similarity=0.246  Sum_probs=17.9

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +-++||+||||||++++++..
T Consensus        57 ~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           57 YGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEcCCCchHHHHHHHHhcC
Confidence            557899999999999987753

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=87.71  E-value=0.24  Score=46.02  Aligned_cols=30  Identities=20%  Similarity=0.262  Sum_probs=21.8

Q ss_pred             HHHHHhhhhh--heeccccCCCchhhHHHHHH
Q psy4734         175 LKKIFEVRHG--LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       175 l~k~~~~~~~--v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.+++....+  +.++||+|+||||++++|+.
T Consensus       160 v~~lf~~l~geiv~l~G~sG~GKSTll~~l~g  191 (301)
T 1u0l_A          160 IEELKEYLKGKISTMAGLSGVGKSSLLNAINP  191 (301)
T ss_dssp             HHHHHHHHSSSEEEEECSTTSSHHHHHHHHST
T ss_pred             HHHHHHHhcCCeEEEECCCCCcHHHHHHHhcc
Confidence            4555554444  56789999999999888653

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=87.60  E-value=0.11  Score=49.67  Aligned_cols=22  Identities=32%  Similarity=0.295  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        34 ~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           34 FGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5578999999999999987543

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=87.54  E-value=0.12  Score=46.21  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++||+||||||++++++-++.
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~~   52 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTALI   52 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhcccc
Confidence            45679999999999999887663

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=87.53  E-value=0.17  Score=48.19  Aligned_cols=24  Identities=25%  Similarity=0.371  Sum_probs=20.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.+.||+||||||+.+.|++.++
T Consensus         9 lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            9 LIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             eEEEECCCcCcHHHHHHHHHHHcC
Confidence            356789999999999999888764

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=87.49  E-value=0.24  Score=47.45  Aligned_cols=25  Identities=24%  Similarity=0.427  Sum_probs=22.1

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .+.++|++|+||||+.+.|+..+..
T Consensus        26 ~i~l~G~~G~GKTTl~~~la~~l~~   50 (359)
T 2ga8_A           26 CVILVGSPGSGKSTIAEELCQIINE   50 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHhCC
Confidence            4778999999999999999988764

>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=87.41  E-value=0.21  Score=48.16  Aligned_cols=24  Identities=25%  Similarity=0.213  Sum_probs=20.4

Q ss_pred             hhhheeccccCCCchhhHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ...+.+.||+|+||||+.+.|+..
T Consensus       169 ~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          169 KRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            345778899999999999998864

>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=87.41  E-value=0.3  Score=43.34  Aligned_cols=32  Identities=16%  Similarity=0.229  Sum_probs=21.7

Q ss_pred             chhhHHHHHhhhhhheeccccCCCchhhHHHH
Q psy4734         171 VQPHLKKIFEVRHGLMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       171 lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L  202 (367)
                      +|..+...+.....+++.||+|||||+++...
T Consensus        65 ~q~~~i~~i~~g~~~~i~g~TGsGKTt~~~~~   96 (235)
T 3llm_A           65 FESEILEAISQNSVVIIRGATGCGKTTQVPQF   96 (235)
T ss_dssp             GHHHHHHHHHHCSEEEEECCTTSSHHHHHHHH
T ss_pred             HHHHHHHHHhcCCEEEEEeCCCCCcHHhHHHH
Confidence            33333344444556788999999999877654

>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=87.16  E-value=0.26  Score=44.34  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.+.|++||||||..+.|++.+...
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            5567999999999999999888643

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=87.09  E-value=1.1  Score=40.13  Aligned_cols=36  Identities=22%  Similarity=0.068  Sum_probs=25.9

Q ss_pred             cccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc
Q psy4734         189 GESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT  233 (367)
Q Consensus       189 g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t  233 (367)
                      +..|+||||+.-.|+.++...+         .+|-+...+|..-+
T Consensus        26 ~kGGvGKTT~a~nLA~~la~~G---------~~VlliD~D~~~~~   61 (262)
T 2ph1_A           26 GKGGVGKSTVTALLAVHYARQG---------KKVGILDADFLGPS   61 (262)
T ss_dssp             SSSCTTHHHHHHHHHHHHHHTT---------CCEEEEECCSSCCH
T ss_pred             CCCCCCHHHHHHHHHHHHHHCC---------CeEEEEeCCCCCCC
Confidence            6789999999999999887542         34555566665533

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=87.05  E-value=0.29  Score=42.54  Aligned_cols=25  Identities=32%  Similarity=0.291  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.|.|..||||||..+.|++.|...
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~   27 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKR   27 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3466999999999999999988653

>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=87.00  E-value=0.47  Score=47.66  Aligned_cols=44  Identities=20%  Similarity=0.314  Sum_probs=31.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCcc
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITM  234 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~  234 (367)
                      -+++.|.+|||||++++.+...+-....       ...|.+..++||....
T Consensus       169 HlLIaG~TGSGKSt~L~~li~sLl~~~~-------p~~v~l~liDpK~~el  212 (512)
T 2ius_A          169 HLLVAGTTGSGASVGVNAMILSMLYKAQ-------PEDVRFIMIDPKMLEL  212 (512)
T ss_dssp             SEEEECCTTSSHHHHHHHHHHHHHTTCC-------TTTEEEEEECCSSSGG
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHhCC-------CceEEEEEECCchhhh
Confidence            3677899999999999998765432111       1347778899997543

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=86.97  E-value=0.19  Score=43.72  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++||||||+.+.|++.+
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            6678999999999999988765

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=86.92  E-value=0.17  Score=46.98  Aligned_cols=21  Identities=29%  Similarity=0.379  Sum_probs=17.9

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||++++++..
T Consensus        67 ~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           67 LAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHhcC
Confidence            667899999999999987654

>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=86.82  E-value=0.13  Score=54.52  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=21.7

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -..|++|.||||+|||++.+.++..+
T Consensus       237 ~p~GILL~GPPGTGKT~LAraiA~el  262 (806)
T 3cf2_A          237 PPRGILLYGPPGTGKTLIARAVANET  262 (806)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHTTT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999998877543

>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=86.82  E-value=0.13  Score=48.22  Aligned_cols=23  Identities=35%  Similarity=0.332  Sum_probs=18.9

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+-++||+||||||++++|+..+
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSS
T ss_pred             EEEEECCCCchHHHHHHHHHcCC
Confidence            36688999999999999876543

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=86.76  E-value=0.23  Score=48.71  Aligned_cols=21  Identities=38%  Similarity=0.513  Sum_probs=18.4

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++|++|+||||++++|...
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            568899999999999998754

>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=86.61  E-value=0.31  Score=40.35  Aligned_cols=23  Identities=17%  Similarity=0.359  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..++||.|+|||+++..+.-++.
T Consensus        26 ~~I~G~NGsGKStil~Ai~~~l~   48 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAILVGLY   48 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc
Confidence            45679999999999998877663

>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=86.60  E-value=0.23  Score=48.58  Aligned_cols=32  Identities=31%  Similarity=0.314  Sum_probs=23.1

Q ss_pred             hhHHHHHhhhhhheeccccCCCchhhHHHHHH
Q psy4734         173 PHLKKIFEVRHGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       173 ~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      ..+........-+.++|++|+||||++++|..
T Consensus        60 ~~L~~~~~~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           60 DALKEIDSSVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             HHHHHHHHCCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             hhhhhcccCCeEEEEECCCCCcHHHHHHHHhC
Confidence            33444444444567889999999999998765

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=86.58  E-value=0.32  Score=43.41  Aligned_cols=24  Identities=33%  Similarity=0.390  Sum_probs=20.8

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||..+.|++.+..
T Consensus        24 i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           24 ITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            445699999999999999998875

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=86.42  E-value=0.23  Score=49.22  Aligned_cols=26  Identities=31%  Similarity=0.395  Sum_probs=21.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIA  210 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~  210 (367)
                      +.++||+||||||++++|+..+....
T Consensus       141 v~IvGpnGsGKSTLlr~L~Gl~~p~~  166 (460)
T 2npi_A          141 VVIVGGSQTGKTSLSRTLCSYALKFN  166 (460)
T ss_dssp             EEEEESTTSSHHHHHHHHHHTTHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCcccccC
Confidence            77889999999999999987664443

>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=86.41  E-value=0.22  Score=45.74  Aligned_cols=20  Identities=35%  Similarity=0.378  Sum_probs=17.7

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.+.|++||||||+.+.|++
T Consensus        78 I~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           78 LGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            66789999999999999883

>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=86.15  E-value=0.27  Score=40.69  Aligned_cols=20  Identities=25%  Similarity=0.529  Sum_probs=17.1

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+||||+++.+.
T Consensus         5 ~v~lvG~~gvGKStL~~~l~   24 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALT   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            36788999999999988765

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=86.06  E-value=0.3  Score=46.26  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|++|+||||+++.|...+.
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            66789999999999999887653

>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=86.00  E-value=0.3  Score=42.95  Aligned_cols=22  Identities=36%  Similarity=0.255  Sum_probs=18.4

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      -+.+.||+|+||||+.+.++..
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            3667899999999999887753

>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=85.97  E-value=0.26  Score=45.24  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=20.1

Q ss_pred             hhhheeccccCCCchhhHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.+++|.||||+|||.+.+.++..
T Consensus       104 ~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A          104 RNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhh
Confidence            346999999999999998877654

>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=85.91  E-value=0.29  Score=42.32  Aligned_cols=20  Identities=30%  Similarity=0.124  Sum_probs=17.7

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.+.|++|+||||+...++.
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            66789999999999988876

>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=85.88  E-value=0.66  Score=39.64  Aligned_cols=46  Identities=24%  Similarity=0.218  Sum_probs=29.8

Q ss_pred             hHHHHHHHHhcC--CcccchhhHHHHHhhhhhheeccccCCCchhhHH
Q psy4734         155 NDELLEILSETK--DPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQ  200 (367)
Q Consensus       155 ~~~Ll~ils~~~--~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~  200 (367)
                      ++++++.+.+..  .+...|...-..+.....+++.+|+|+|||.++-
T Consensus        11 ~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~apTGsGKT~~~~   58 (206)
T 1vec_A           11 KRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYL   58 (206)
T ss_dssp             CHHHHHHHHTTTCCSCCHHHHHHHHHHHTTCCEEEECCSSSTTHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHccCCCEEEECCCCCchHHHHH
Confidence            356777776532  3445565544444444668889999999997754

>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=85.81  E-value=0.32  Score=44.66  Aligned_cols=23  Identities=30%  Similarity=0.157  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++|+||||+.+.++..+.
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            56789999999999999887654

>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=85.81  E-value=0.26  Score=41.52  Aligned_cols=21  Identities=48%  Similarity=0.604  Sum_probs=17.8

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      -+.++|++|+||||+++.+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            367899999999999888764

>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=85.76  E-value=0.47  Score=41.49  Aligned_cols=47  Identities=26%  Similarity=0.295  Sum_probs=31.2

Q ss_pred             hHHHHHHHHhc--CCcccchhhHHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSET--KDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++++.+...  ..+..+|...-..+.....+++.+|+|+|||.++-.
T Consensus        28 ~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~l~~apTGsGKT~~~~l   76 (228)
T 3iuy_A           28 YPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLM   76 (228)
T ss_dssp             CHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHH
Confidence            35677766543  345566765444444455678899999999987543

>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=85.66  E-value=0.31  Score=39.70  Aligned_cols=20  Identities=30%  Similarity=0.448  Sum_probs=17.1

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+||||+++.+.
T Consensus         7 ~i~v~G~~~~GKssl~~~l~   26 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYC   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            46788999999999988765

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=85.62  E-value=0.24  Score=44.05  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=19.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++||||||..+.|++.+.
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            56779999999999999988763

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=85.58  E-value=0.33  Score=43.06  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|++|+||||..+.|++.+.
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            45669999999999999988774

>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=85.52  E-value=0.18  Score=49.12  Aligned_cols=21  Identities=33%  Similarity=0.238  Sum_probs=17.6

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ++++|++||||||+.+.|++.
T Consensus       261 Iil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          261 VVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             EEEESCTTSSHHHHHHHHTGG
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            667899999999998887653

>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=85.45  E-value=0.24  Score=46.71  Aligned_cols=23  Identities=35%  Similarity=0.433  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++||+|+|||++...|++.++
T Consensus         6 i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            6 VAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             EEEECCTTSCHHHHHHHHHHTTT
T ss_pred             EEEECCCcCCHHHHHHHHHHhCc
Confidence            56789999999999998887653

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=85.43  E-value=0.18  Score=44.78  Aligned_cols=21  Identities=24%  Similarity=0.324  Sum_probs=17.6

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.+.|+.||||||+.+.|+..
T Consensus        23 i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           23 VLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             EEEECSTTSCHHHHHHTTGGG
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            557799999999998887654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=85.43  E-value=0.32  Score=39.35  Aligned_cols=21  Identities=24%  Similarity=0.482  Sum_probs=17.5

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      .+.++|++|+|||++++.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~   23 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLK   23 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            367889999999999887653

>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=85.33  E-value=0.31  Score=39.39  Aligned_cols=20  Identities=35%  Similarity=0.333  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+||||+++.+.
T Consensus         5 ~i~v~G~~~~GKssl~~~l~   24 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLI   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36788999999999987764

>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=85.29  E-value=0.26  Score=43.35  Aligned_cols=25  Identities=24%  Similarity=0.304  Sum_probs=19.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..++++.||+|+|||++...|++..
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            3557889999999999977766544

>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=85.25  E-value=0.38  Score=47.32  Aligned_cols=26  Identities=35%  Similarity=0.277  Sum_probs=22.1

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .-++++|++|+||||+...|+..+..
T Consensus        98 ~vI~lvG~~GsGKTTt~~kLA~~l~~  123 (433)
T 3kl4_A           98 FIIMLVGVQGSGKTTTAGKLAYFYKK  123 (433)
T ss_dssp             EEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            44778899999999999999988754

>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=85.20  E-value=0.37  Score=42.25  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=19.9

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.|.|+.||||||..+.|++.|.
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            45679999999999999998873

>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=85.13  E-value=0.28  Score=46.10  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ++++||+|+|||++...|++.+
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            5678999999999998888765

>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=85.13  E-value=0.34  Score=39.25  Aligned_cols=20  Identities=20%  Similarity=0.262  Sum_probs=16.7

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+||||+++.+.
T Consensus         5 ~i~v~G~~~~GKSsli~~l~   24 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFV   24 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36788999999999977654

>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=84.99  E-value=0.88  Score=38.78  Aligned_cols=46  Identities=24%  Similarity=0.252  Sum_probs=28.8

Q ss_pred             hHHHHHHHHhc--CCcccchhhHHHHHhhhhhheeccccCCCchhhHH
Q psy4734         155 NDELLEILSET--KDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQ  200 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~  200 (367)
                      ++++.+.+...  ..+...|...-..+.....+++.+|+|+|||.++-
T Consensus         9 ~~~l~~~l~~~~~~~~~~~Q~~~i~~~~~~~~~li~~~TGsGKT~~~~   56 (207)
T 2gxq_A            9 KPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFA   56 (207)
T ss_dssp             CHHHHHHHHHTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHH
T ss_pred             CHHHHHHHHHcCCCCCCHHHHHHHHHHcCCCCEEEECCCCChHHHHHH
Confidence            35666666543  23445565433333334568888999999998743

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=84.98  E-value=0.41  Score=45.06  Aligned_cols=26  Identities=31%  Similarity=0.413  Sum_probs=22.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ..++++|++|+||||+...|+..+..
T Consensus       106 ~vI~ivG~~G~GKTT~~~~LA~~l~~  131 (320)
T 1zu4_A          106 NIFMLVGVNGTGKTTSLAKMANYYAE  131 (320)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            44778899999999999999988764

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=84.95  E-value=0.33  Score=40.69  Aligned_cols=20  Identities=25%  Similarity=0.529  Sum_probs=17.1

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+||||+++.|.
T Consensus         9 ~i~lvG~~gvGKStL~~~l~   28 (188)
T 2wjg_A            9 EIALIGNPNVGKSTIFNALT   28 (188)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            36788999999999988765

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=84.95  E-value=0.34  Score=45.39  Aligned_cols=22  Identities=23%  Similarity=0.224  Sum_probs=18.1

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      -+.++|+.||||||+++.|...
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEEecCCCCHHHHHHHHHhh
Confidence            3567899999999999987653

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=84.78  E-value=0.35  Score=40.71  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=17.7

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ..+.++|++|+||||+++.|.
T Consensus        49 ~~i~vvG~~g~GKSsll~~l~   69 (193)
T 2ged_A           49 PSIIIAGPQNSGKTSLLTLLT   69 (193)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            347889999999999988765

>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=84.70  E-value=0.37  Score=39.10  Aligned_cols=20  Identities=20%  Similarity=0.258  Sum_probs=16.9

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+||||+++.+.
T Consensus         6 ~i~v~G~~~~GKssl~~~l~   25 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFM   25 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36788999999999987765

>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=84.68  E-value=0.39  Score=48.33  Aligned_cols=25  Identities=28%  Similarity=0.242  Sum_probs=21.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      -++++|.+||||||+.+.|++.++.
T Consensus        37 lIvlvGlpGSGKSTia~~La~~L~~   61 (520)
T 2axn_A           37 VIVMVGLPARGKTYISKKLTRYLNW   61 (520)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3677899999999999999988753

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=84.43  E-value=0.3  Score=45.42  Aligned_cols=20  Identities=55%  Similarity=0.496  Sum_probs=17.6

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      ++++|++|+||||+++.|..
T Consensus        21 I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            57899999999999999764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=84.36  E-value=0.36  Score=39.39  Aligned_cols=20  Identities=20%  Similarity=0.217  Sum_probs=16.9

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+||||+++.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~   24 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFV   24 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46788999999999987754

>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=84.30  E-value=0.41  Score=43.56  Aligned_cols=25  Identities=20%  Similarity=0.102  Sum_probs=20.3

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .-+.++||+|+||||+...++..+.
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~~~~   55 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAAQIA   55 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            3466789999999999998887553

>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=84.28  E-value=0.39  Score=39.08  Aligned_cols=20  Identities=25%  Similarity=0.418  Sum_probs=16.8

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+|||++++.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~   24 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFV   24 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            36788999999999987764

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=84.19  E-value=0.35  Score=46.35  Aligned_cols=21  Identities=24%  Similarity=0.222  Sum_probs=17.9

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      .+.++|++|+||||++++|..
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g  237 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLG  237 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCccHHHHHHHHhc
Confidence            367889999999999988763

>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=84.18  E-value=0.39  Score=39.58  Aligned_cols=20  Identities=15%  Similarity=0.335  Sum_probs=17.1

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+||||+++.+.
T Consensus         9 ~i~v~G~~~~GKSsli~~l~   28 (177)
T 1wms_A            9 KVILLGDGGVGKSSLMNRYV   28 (177)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47789999999999988764

>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=84.16  E-value=0.37  Score=39.58  Aligned_cols=20  Identities=25%  Similarity=0.350  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus         6 ki~i~G~~~vGKSsl~~~l~   25 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFA   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHHh
Confidence            46789999999999987764

>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=84.07  E-value=0.4  Score=39.08  Aligned_cols=20  Identities=15%  Similarity=0.280  Sum_probs=16.9

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus         8 ~i~v~G~~~~GKSsli~~l~   27 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFV   27 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            36788999999999988764

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=84.06  E-value=0.42  Score=45.42  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++|+||+||||+++.|...+.
T Consensus        77 v~lvG~pgaGKSTLln~L~~~~~   99 (349)
T 2www_A           77 VGLSGPPGAGKSTFIEYFGKMLT   99 (349)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhh
Confidence            66789999999999999887653

>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=84.04  E-value=0.41  Score=38.92  Aligned_cols=20  Identities=25%  Similarity=0.298  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+|||++++.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~   24 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFV   24 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36788999999999988765

>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=83.96  E-value=0.36  Score=40.34  Aligned_cols=19  Identities=26%  Similarity=0.539  Sum_probs=16.6

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+||||+++.|.
T Consensus         7 i~ivG~~g~GKStLl~~l~   25 (172)
T 2gj8_A            7 VVIAGRPNAGKSSLLNALA   25 (172)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6788999999999988765

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=83.96  E-value=0.41  Score=39.13  Aligned_cols=20  Identities=25%  Similarity=0.378  Sum_probs=16.9

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+||||+++.+.
T Consensus         8 ~i~v~G~~~~GKssli~~l~   27 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYC   27 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            46788999999999987654

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=83.94  E-value=0.36  Score=41.52  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=18.3

Q ss_pred             hhhheeccccCCCchhhHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      -.|++|.|++|+||||+...|..
T Consensus        16 G~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            45789999999999998665543

>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=83.87  E-value=1.1  Score=40.44  Aligned_cols=48  Identities=19%  Similarity=0.232  Sum_probs=30.7

Q ss_pred             chHHHHHHHHhcC--CcccchhhHHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         154 SNDELLEILSETK--DPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       154 s~~~Ll~ils~~~--~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      -++++++.+....  .+..+|..+-..+.....+++.+|+|+|||.++-.
T Consensus        61 l~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~a~TGsGKT~~~~l  110 (262)
T 3ly5_A           61 VNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLI  110 (262)
T ss_dssp             CCHHHHHHHHHTTCCBCCHHHHHHHHHHHHTCCCEECCCTTSCHHHHHHH
T ss_pred             cCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEEEccCCCCchHHHHH
Confidence            3567777776542  24456655443333335588899999999987543

>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=83.78  E-value=0.38  Score=41.32  Aligned_cols=35  Identities=20%  Similarity=0.311  Sum_probs=16.5

Q ss_pred             ccchhhHHHHHhhhh--hheeccccCCCchhhHHHHH
Q psy4734         169 LRVQPHLKKIFEVRH--GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       169 ~~lq~~l~k~~~~~~--~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ...+.|+.++.....  -+.++|++|+|||++++.+.
T Consensus        15 ~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~   51 (204)
T 4gzl_A           15 VPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYT   51 (204)
T ss_dssp             ---------------CEEEEEEESTTSSHHHHHHHHH
T ss_pred             ccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHH
Confidence            345567776655443  46778999999999986654

>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=83.75  E-value=0.42  Score=39.45  Aligned_cols=21  Identities=24%  Similarity=0.362  Sum_probs=17.4

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ..+.++|++|+||||+++.+.
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~   29 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYV   29 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            347788999999999987654

>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=83.74  E-value=0.4  Score=39.11  Aligned_cols=20  Identities=20%  Similarity=0.375  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+|||++++.+.
T Consensus         5 ~i~v~G~~~~GKssli~~l~   24 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFV   24 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            46788999999999987765

>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=83.70  E-value=0.35  Score=39.41  Aligned_cols=19  Identities=16%  Similarity=0.328  Sum_probs=16.4

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+|||++++.+.
T Consensus         5 i~~vG~~~~GKSsli~~l~   23 (166)
T 3q72_A            5 VLLLGAPGVGKSALARIFG   23 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHc
Confidence            6788999999999987764

>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=83.65  E-value=0.41  Score=39.17  Aligned_cols=19  Identities=47%  Similarity=0.520  Sum_probs=16.6

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+|||++++.+.
T Consensus         5 i~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            5 VMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6788999999999988764

>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=83.53  E-value=2.1  Score=39.94  Aligned_cols=129  Identities=12%  Similarity=0.061  Sum_probs=72.6

Q ss_pred             hhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHH
Q psy4734         180 EVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       180 ~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      ...+..+|.||+|.||++..+.+++++....        ........++          |     ..+|.     .++..
T Consensus        16 ~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~--------~~~~~~~~~~----------~-----~~~~~-----~l~~~   67 (343)
T 1jr3_D           16 GLRAAYLLLGNDPLLLQESQDAVRQVAAAQG--------FEEHHTFSID----------P-----NTDWN-----AIFSL   67 (343)
T ss_dssp             CCCSEEEEEESCHHHHHHHHHHHHHHHHHHT--------CCEEEEEECC----------T-----TCCHH-----HHHHH
T ss_pred             CCCcEEEEECCcHHHHHHHHHHHHHHHHhCC--------CCeeEEEEec----------C-----CCCHH-----HHHHH
Confidence            4456677889999999999999888765221        0011111111          1     12232     22222


Q ss_pred             HhcC-CCCCceEEEEcCC---CChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC------ccCcchhhce
Q psy4734         260 MAVS-TTPDRKWIMFDGP---IDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE------FASPATVSRV  329 (367)
Q Consensus       260 ~~~~-~~~~~~wivfDG~---~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~------~asPatvsRc  329 (367)
                      +... --.+++.+|+|..   +...-.+.|-..+.+             .|++..+||.++++.      ..-|+..|||
T Consensus        68 ~~~~plf~~~kvvii~~~~~kl~~~~~~aLl~~le~-------------p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~  134 (343)
T 1jr3_D           68 CQAMSLFASRQTLLLLLPENGPNAAINEQLLTLTGL-------------LHDDLLLIVRGNKLSKAQENAAWFTALANRS  134 (343)
T ss_dssp             HHHHHHCCSCEEEEEECCSSCCCTTHHHHHHHHHTT-------------CBTTEEEEEEESCCCTTTTTSHHHHHHTTTC
T ss_pred             hcCcCCccCCeEEEEECCCCCCChHHHHHHHHHHhc-------------CCCCeEEEEEcCCCChhhHhhHHHHHHHhCc
Confidence            2211 1245799999954   333333444333322             356777888887753      3556778999


Q ss_pred             eeEEecccCCchHHHHHHHHHHh
Q psy4734         330 GMIYFELKCISWTTFFLSYQNEL  352 (367)
Q Consensus       330 g~v~~~~~~~~~~~~~~swl~~~  352 (367)
                      .++.+.+-.-   .-+..|+...
T Consensus       135 ~~~~~~~l~~---~~l~~~l~~~  154 (343)
T 1jr3_D          135 VQVTCQTPEQ---AQLPRWVAAR  154 (343)
T ss_dssp             EEEEECCCCT---THHHHHHHHH
T ss_pred             eEEEeeCCCH---HHHHHHHHHH
Confidence            9999876542   3345566543

>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=83.52  E-value=0.21  Score=42.93  Aligned_cols=20  Identities=35%  Similarity=0.552  Sum_probs=17.1

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.++|++|+||||+++.|..
T Consensus        29 v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           29 VAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             EEEEECTTSSHHHHHTTTCC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67889999999999887653

>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=83.44  E-value=0.44  Score=46.39  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.||+|+|||++...|++.++
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            56789999999999999887764

>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=83.43  E-value=0.75  Score=43.64  Aligned_cols=39  Identities=23%  Similarity=0.286  Sum_probs=26.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS  231 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka  231 (367)
                      -+.++|++|+||||+...|+.++...         +.+|.....+|.+
T Consensus        81 ~I~i~G~~G~GKSTl~~~L~~~l~~~---------g~kV~vi~~Dp~~  119 (355)
T 3p32_A           81 RVGITGVPGVGKSTAIEALGMHLIER---------GHRVAVLAVDPSS  119 (355)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHTT---------TCCEEEEEEC---
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhC---------CCceEEEecCCCC
Confidence            46778999999999999988877432         2356555566554

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=83.36  E-value=0.46  Score=47.38  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=19.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.++||+||||||++++|+..+
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCC
Confidence            346688999999999999987654

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=83.29  E-value=0.55  Score=40.86  Aligned_cols=24  Identities=17%  Similarity=0.273  Sum_probs=20.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ..++||.|+||||++..+.-++..
T Consensus        26 ~~I~G~NgsGKStil~ai~~~l~g   49 (203)
T 3qks_A           26 NLIIGQNGSGKSSLLDAILVGLYW   49 (203)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhcC
Confidence            456799999999999998877754

>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=83.86  E-value=0.23  Score=42.56  Aligned_cols=38  Identities=18%  Similarity=0.268  Sum_probs=26.4

Q ss_pred             CCcccchhhHHHHHhhhh--hheeccccCCCchhhHHHHH
Q psy4734         166 KDPLRVQPHLKKIFEVRH--GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       166 ~~~~~lq~~l~k~~~~~~--~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .-+....+|+.+.+....  .+.++|++|+|||++++.+.
T Consensus        12 ~~~~~~~~~m~~~~~~~~~~ki~v~G~~~~GKSsli~~l~   51 (204)
T 3th5_A           12 SGLVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYT   51 (204)
Confidence            334455667777654443  46778999999999987664

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=83.25  E-value=0.43  Score=39.39  Aligned_cols=21  Identities=29%  Similarity=0.287  Sum_probs=17.6

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      .+.++|++|+||||+++.+..
T Consensus        11 ~i~v~G~~~~GKssli~~l~~   31 (181)
T 2fn4_A           11 KLVVVGGGGVGKSALTIQFIQ   31 (181)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            477899999999999877653

>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=83.25  E-value=0.45  Score=41.08  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=17.6

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ..++++|++|+|||++++.|.
T Consensus        13 ~~i~~~G~~g~GKTsl~~~l~   33 (218)
T 1nrj_B           13 PSIIIAGPQNSGKTSLLTLLT   33 (218)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            347889999999999987764

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=83.23  E-value=0.44  Score=42.74  Aligned_cols=22  Identities=23%  Similarity=0.409  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-+.|+|||||||..+.|++.+
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            5578999999999999988766

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=83.22  E-value=0.48  Score=45.34  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=19.1

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..++||+|+||||++.++.-++.
T Consensus        26 ~~i~G~NGaGKTTll~ai~~al~   48 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAISFALF   48 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            34679999999999999887763

>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=83.16  E-value=0.47  Score=38.62  Aligned_cols=20  Identities=30%  Similarity=0.429  Sum_probs=16.8

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+|||++++.+.
T Consensus         8 ~i~v~G~~~~GKssli~~l~   27 (170)
T 1r2q_A            8 KLVLLGESAVGKSSLVLRFV   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36788999999999987764

>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=83.00  E-value=0.47  Score=39.57  Aligned_cols=20  Identities=25%  Similarity=0.358  Sum_probs=17.1

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+|||++++.+.
T Consensus        13 ki~v~G~~~~GKSsli~~l~   32 (195)
T 3bc1_A           13 KFLALGDSGVGKTSVLYQYT   32 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47889999999999987764

>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=82.94  E-value=0.42  Score=50.64  Aligned_cols=26  Identities=23%  Similarity=0.308  Sum_probs=21.4

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ...|++|.||||+|||.+.+.++..+
T Consensus       510 ~~~gvLl~GPPGtGKT~lAkaiA~e~  535 (806)
T 3cf2_A          510 PSKGVLFYGPPGCGKTLLAKAIANEC  535 (806)
T ss_dssp             CCSCCEEESSTTSSHHHHHHHHHHTT
T ss_pred             CCceEEEecCCCCCchHHHHHHHHHh
Confidence            45789999999999999888776543

>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=82.80  E-value=0.52  Score=46.56  Aligned_cols=24  Identities=29%  Similarity=0.308  Sum_probs=21.1

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -++++|.+||||||+.+.|++.+.
T Consensus        41 ~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           41 LIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            467889999999999999988775

>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=82.75  E-value=0.49  Score=39.40  Aligned_cols=20  Identities=35%  Similarity=0.335  Sum_probs=17.1

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+||||+++.|.
T Consensus         6 ki~v~G~~~~GKSsli~~l~   25 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLI   25 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36789999999999988764

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=82.65  E-value=0.98  Score=39.58  Aligned_cols=47  Identities=17%  Similarity=0.150  Sum_probs=30.3

Q ss_pred             hHHHHHHHHhc--CCcccchhhHHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSET--KDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      .+.+.+.+...  ..+..+|...-..+.....+++.+|+|+|||.++-.
T Consensus        33 ~~~l~~~l~~~~~~~~~~~Q~~~i~~~~~~~~~li~a~TGsGKT~~~~~   81 (236)
T 2pl3_A           33 SKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLV   81 (236)
T ss_dssp             CHHHHHHHHHTTCCBCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEEeCCCCcHHHHHHH
Confidence            35666777543  234455655444444456688899999999987543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=82.61  E-value=0.44  Score=39.32  Aligned_cols=21  Identities=29%  Similarity=0.461  Sum_probs=17.3

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      --+.++|++|+|||++++.|.
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~   30 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFA   30 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHh
Confidence            347789999999999987754

>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=82.60  E-value=0.53  Score=47.95  Aligned_cols=57  Identities=21%  Similarity=0.256  Sum_probs=35.6

Q ss_pred             ecchHHHHHHHHhcCCccc-ch-hhHHHHHh-hh-------hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         152 FLSNDELLEILSETKDPLR-VQ-PHLKKIFE-VR-------HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       152 f~s~~~Ll~ils~~~~~~~-lq-~~l~k~~~-~~-------~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .+|-..+.+.+..+..+.. .. +.+.+... ..       .-+.+.|.+||||||+.+.|++.+..
T Consensus       356 ~iSgt~ir~~l~~g~~~p~w~~~~eVsr~lRe~~~~~gq~~~~I~l~GlsGSGKSTiA~~La~~L~~  422 (573)
T 1m8p_A          356 NISGTELRRRLRSGAHIPEWFSYPEVVKILRESNPPRATQGFTIFLTGYMNSGKDAIARALQVTLNQ  422 (573)
T ss_dssp             CCCHHHHHHHHHHTCCCCTTTSCHHHHHHHHTTSCCTTTCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cCChHHHHHHHhccCCCCcccccccccHHHHHhcccccccceEEEeecCCCCCHHHHHHHHHHHhcc
Confidence            3555667777776554422 11 12333221 11       23667899999999999999998864

>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=82.57  E-value=1  Score=39.72  Aligned_cols=45  Identities=20%  Similarity=0.271  Sum_probs=29.2

Q ss_pred             HHHHHHHHhc--CCcccchhhHHHHHhhhhhheeccccCCCchhhHH
Q psy4734         156 DELLEILSET--KDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQ  200 (367)
Q Consensus       156 ~~Ll~ils~~--~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~  200 (367)
                      +++++.+.+.  ..+..+|...-..+.....+++.+|+|+|||.++-
T Consensus        38 ~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~l~~a~TGsGKT~~~~   84 (245)
T 3dkp_A           38 SRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFS   84 (245)
T ss_dssp             HHHHHHHHHTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHH
T ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHHH
Confidence            4566666543  33555666544444444558889999999998753

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=82.56  E-value=0.51  Score=38.58  Aligned_cols=21  Identities=29%  Similarity=0.377  Sum_probs=17.4

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ..+.++|++|+|||++++.+.
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~   28 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQ   28 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHh
Confidence            347889999999999987763

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=82.50  E-value=0.39  Score=41.85  Aligned_cols=24  Identities=17%  Similarity=0.075  Sum_probs=20.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -+.+.|+.||||||+.+.|++.++
T Consensus         8 iI~i~g~~GsGk~ti~~~la~~lg   31 (201)
T 3fdi_A            8 IIAIGREFGSGGHLVAKKLAEHYN   31 (201)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhC
Confidence            366779999999999999998763

>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=82.48  E-value=0.51  Score=38.81  Aligned_cols=21  Identities=14%  Similarity=0.324  Sum_probs=17.6

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -.+.++|++|+||||+++.+.
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~   36 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFT   36 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            347889999999999988764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=82.43  E-value=0.47  Score=39.13  Aligned_cols=21  Identities=24%  Similarity=0.302  Sum_probs=17.4

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .-+.++|++|+|||++++.+.
T Consensus         9 ~~i~v~G~~~~GKssl~~~l~   29 (178)
T 2lkc_A            9 PVVTIMGHVDHGKTTLLDAIR   29 (178)
T ss_dssp             CEEEEESCTTTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            347788999999999987764

>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=82.29  E-value=0.94  Score=44.42  Aligned_cols=27  Identities=30%  Similarity=0.325  Sum_probs=22.4

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      ..++++|++|+||||+...|+..+...
T Consensus       100 ~vI~ivG~~GvGKTTla~~La~~l~~~  126 (432)
T 2v3c_C          100 NVILLVGIQGSGKTTTAAKLARYIQKR  126 (432)
T ss_dssp             CCEEEECCSSSSTTHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            357789999999999999998877543

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=82.29  E-value=0.49  Score=39.03  Aligned_cols=20  Identities=30%  Similarity=0.516  Sum_probs=17.2

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus         8 ki~v~G~~~~GKssl~~~l~   27 (178)
T 2hxs_A            8 KIVVLGDGASGKTSLTTCFA   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            36788999999999988765

>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=82.26  E-value=0.53  Score=38.23  Aligned_cols=19  Identities=37%  Similarity=0.511  Sum_probs=16.5

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+|||++++.+.
T Consensus         3 i~~~G~~~~GKssl~~~l~   21 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLK   21 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5788999999999988764

>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=82.20  E-value=0.52  Score=39.51  Aligned_cols=20  Identities=35%  Similarity=0.333  Sum_probs=17.3

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+||||+++.|.
T Consensus        23 ki~vvG~~~~GKSsli~~l~   42 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLI   42 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            47788999999999988765

>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=82.16  E-value=0.46  Score=39.97  Aligned_cols=21  Identities=24%  Similarity=0.321  Sum_probs=18.0

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ..+.++|++|+||||+++.|.
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~   44 (195)
T 1svi_A           24 PEIALAGRSNVGKSSFINSLI   44 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            447889999999999988775

>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=82.09  E-value=0.54  Score=38.99  Aligned_cols=21  Identities=24%  Similarity=0.341  Sum_probs=17.5

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ..++++|++|+||||+++.|.
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~   39 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFM   39 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHh
Confidence            347889999999999987765

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=82.08  E-value=0.53  Score=39.46  Aligned_cols=21  Identities=29%  Similarity=0.371  Sum_probs=17.5

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      -+.++|++|+|||++++.|..
T Consensus         9 ki~v~G~~~~GKSsli~~l~~   29 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTK   29 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            377889999999999887653

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=82.04  E-value=0.47  Score=39.59  Aligned_cols=19  Identities=32%  Similarity=0.403  Sum_probs=16.4

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+|||++++.+.
T Consensus         4 i~v~G~~~~GKSsli~~l~   22 (190)
T 2cxx_A            4 IIFAGRSNVGKSTLIYRLT   22 (190)
T ss_dssp             EEEEEBTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6788999999999987764

>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=81.99  E-value=0.54  Score=39.61  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=17.6

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -.+.++|++|+|||++++.|.
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~   46 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFT   46 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHh
Confidence            457889999999999987654

>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=81.98  E-value=0.84  Score=44.84  Aligned_cols=26  Identities=19%  Similarity=0.234  Sum_probs=21.6

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      .+++.|++|+|||+++..+.+.+...
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~   72 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALIST   72 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhc
Confidence            56777999999999999888877543

>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=81.98  E-value=0.55  Score=48.37  Aligned_cols=23  Identities=35%  Similarity=0.368  Sum_probs=20.8

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.|.|.+||||||+.+.|++.+.
T Consensus        55 IvLtGlsGSGKSTlAr~La~~L~   77 (630)
T 1x6v_B           55 VWLTGLSGAGKTTVSMALEEYLV   77 (630)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            67889999999999999998874

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=81.96  E-value=0.81  Score=42.80  Aligned_cols=45  Identities=20%  Similarity=0.092  Sum_probs=34.0

Q ss_pred             eeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccce
Q psy4734         186 MVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE  240 (367)
Q Consensus       186 ~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~  240 (367)
                      ++.|.+|+||||+...|+.++...         +.+|-+...+| +-+...+||.
T Consensus        18 v~sgKGGvGKTTvA~~LA~~lA~~---------G~rVLlvD~D~-~~~l~~~l~~   62 (324)
T 3zq6_A           18 FIGGKGGVGKTTISAATALWMARS---------GKKTLVISTDP-AHSLSDSLER   62 (324)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHT---------TCCEEEEECCS-SCCHHHHHTS
T ss_pred             EEeCCCCchHHHHHHHHHHHHHHC---------CCcEEEEeCCC-CcCHHHHhCC
Confidence            345889999999999999888754         34677788888 5666666663

>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=81.93  E-value=1.1  Score=38.86  Aligned_cols=45  Identities=20%  Similarity=0.249  Sum_probs=28.6

Q ss_pred             hHHHHHHHHhc--CCcccchhhHHHHHhhhhhheeccccCCCchhhH
Q psy4734         155 NDELLEILSET--KDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAY  199 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~  199 (367)
                      ++++.+.+...  ..+...|...-..+.....+++.+|+|+|||.++
T Consensus        22 ~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~~pTGsGKT~~~   68 (224)
T 1qde_A           22 DENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTF   68 (224)
T ss_dssp             CHHHHHHHHHHTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHH
T ss_pred             CHHHHHHHHHCCCCCCcHHHHHHHHHHhcCCCEEEECCCCCcHHHHH
Confidence            45666666543  2345566554333333456888999999999874

>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=81.92  E-value=0.48  Score=38.96  Aligned_cols=20  Identities=30%  Similarity=0.396  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus        16 ~i~v~G~~~~GKssli~~l~   35 (179)
T 2y8e_A           16 KLVFLGEQSVGKTSLITRFM   35 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47788999999999987764

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=81.90  E-value=0.56  Score=40.56  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=19.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+.++|++|+||||++..|...+
T Consensus        31 ~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           31 VAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            347788999999999988877654

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=81.84  E-value=0.46  Score=46.48  Aligned_cols=20  Identities=55%  Similarity=0.496  Sum_probs=17.4

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.++|++|+||||++++|..
T Consensus        34 I~lvG~sGaGKSTLln~L~g   53 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFL   53 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCcHHHHHHHHhC
Confidence            47899999999999988764

>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=81.80  E-value=0.18  Score=45.64  Aligned_cols=23  Identities=22%  Similarity=0.245  Sum_probs=19.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.+.|++||||||..+.|++.+
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            35677999999999998887765

>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=81.79  E-value=0.56  Score=38.75  Aligned_cols=20  Identities=35%  Similarity=0.396  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus        12 ~i~v~G~~~~GKssli~~l~   31 (180)
T 2g6b_A           12 KVMLVGDSGVGKTCLLVRFK   31 (180)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            47889999999999987754

>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=81.61  E-value=0.57  Score=38.75  Aligned_cols=20  Identities=20%  Similarity=0.376  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+|||++++.+.
T Consensus        14 ki~v~G~~~~GKSsli~~l~   33 (181)
T 2efe_B           14 KLVLLGDVGAGKSSLVLRFV   33 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            47889999999999987764

>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=81.55  E-value=0.57  Score=39.72  Aligned_cols=20  Identities=20%  Similarity=0.258  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -++++|++|+||||+++.+.
T Consensus        16 ki~v~G~~~~GKSsli~~l~   35 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFM   35 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47889999999999987764

>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=81.50  E-value=0.62  Score=45.92  Aligned_cols=26  Identities=35%  Similarity=0.350  Sum_probs=22.0

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .-++++|++|+||||+...|+..+..
T Consensus       101 ~vIlivG~~G~GKTTt~~kLA~~l~~  126 (443)
T 3dm5_A          101 TILLMVGIQGSGKTTTVAKLARYFQK  126 (443)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             eEEEEECcCCCCHHHHHHHHHHHHHH
Confidence            34778899999999999999988754

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=81.39  E-value=0.52  Score=39.46  Aligned_cols=21  Identities=29%  Similarity=0.316  Sum_probs=17.3

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .-+.++|++|+||||+++.+.
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~   44 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALF   44 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            357889999999999987653

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=81.33  E-value=0.34  Score=40.35  Aligned_cols=21  Identities=29%  Similarity=0.377  Sum_probs=17.1

Q ss_pred             hhhheeccccCCCchhhHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L  202 (367)
                      ...+.++|++|+||||+++.+
T Consensus        18 ~~~i~v~G~~~~GKssli~~l   38 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRL   38 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHH
Confidence            345788999999999997654

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=81.28  E-value=0.51  Score=47.65  Aligned_cols=23  Identities=39%  Similarity=0.420  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.++||+||||||++++|+..+
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36688999999999999988543

>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=81.18  E-value=0.56  Score=39.28  Aligned_cols=20  Identities=40%  Similarity=0.572  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus         9 ki~v~G~~~vGKSsli~~l~   28 (184)
T 1m7b_A            9 KIVVVGDSQCGKTALLHVFA   28 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            36788999999999988765

>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=81.16  E-value=0.57  Score=38.96  Aligned_cols=20  Identities=30%  Similarity=0.320  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus        20 ki~v~G~~~~GKSsl~~~l~   39 (183)
T 3kkq_A           20 KLVVVGDGGVGKSALTIQFF   39 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36788999999999987765

>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=81.11  E-value=0.57  Score=38.99  Aligned_cols=21  Identities=19%  Similarity=0.388  Sum_probs=17.6

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      --+.++|++|+|||++++.+.
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~   31 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFI   31 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            457889999999999987764

>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=81.10  E-value=0.61  Score=39.05  Aligned_cols=20  Identities=25%  Similarity=0.386  Sum_probs=16.6

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus        16 ki~vvG~~~~GKssL~~~l~   35 (198)
T 3t1o_A           16 KIVYYGPGLSGKTTNLKWIY   35 (198)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47788999999999976654

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=81.02  E-value=0.77  Score=41.48  Aligned_cols=20  Identities=30%  Similarity=0.542  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+||||+++.|.
T Consensus         3 kI~lvG~~n~GKSTL~n~L~   22 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALT   22 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46788999999999988764

>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=80.98  E-value=0.8  Score=42.51  Aligned_cols=26  Identities=35%  Similarity=0.247  Sum_probs=21.6

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      .-+.++|++|+||||+...|+..+..
T Consensus        99 ~vi~i~G~~G~GKTT~~~~la~~~~~  124 (297)
T 1j8m_F           99 YVIMLVGVQGTGKTTTAGKLAYFYKK  124 (297)
T ss_dssp             EEEEEECSSCSSTTHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            34667899999999999999987754

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=80.98  E-value=0.71  Score=40.49  Aligned_cols=23  Identities=22%  Similarity=0.065  Sum_probs=17.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+.+.|++|+||||+...++...
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~~~   47 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLWNG   47 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36678999999999966555433

>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=80.95  E-value=1.2  Score=39.31  Aligned_cols=47  Identities=15%  Similarity=0.259  Sum_probs=30.7

Q ss_pred             hHHHHHHHHhc--CCcccchhhHHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSET--KDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++.+.+...  ..+..+|...-..+.....+++.+|+|+|||.++-.
T Consensus        37 ~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~g~~~l~~apTGsGKT~~~~l   85 (242)
T 3fe2_A           37 PANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLL   85 (242)
T ss_dssp             CHHHHHHHHTTTCCSCCHHHHHHHHHHHHTCCEEEEECTTSCHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCcCHHHHHHHH
Confidence            35677777653  234556665444444445688899999999988643

>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=80.88  E-value=1.6  Score=37.75  Aligned_cols=47  Identities=21%  Similarity=0.200  Sum_probs=29.6

Q ss_pred             hHHHHHHHHhcC--CcccchhhHHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSETK--DPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~~--~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++.+.+....  .+...|...-..+.....+++.+|+|+|||.++-.
T Consensus        22 ~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~li~~~TGsGKT~~~~~   70 (220)
T 1t6n_A           22 KPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVL   70 (220)
T ss_dssp             CHHHHHHHHHTTCCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCCchhhhhhH
Confidence            467777776532  24555654333333335588889999999987543

>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=80.80  E-value=0.63  Score=38.56  Aligned_cols=20  Identities=30%  Similarity=0.346  Sum_probs=16.7

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+|||++++.+.
T Consensus         7 ~i~~~G~~~~GKssl~~~l~   26 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYT   26 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36788999999999987654

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=80.69  E-value=0.75  Score=47.34  Aligned_cols=25  Identities=20%  Similarity=0.224  Sum_probs=16.4

Q ss_pred             HHhhhhhheeccccCCCchhhHHHH
Q psy4734         178 IFEVRHGLMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       178 ~~~~~~~v~~~g~~gsGKTt~~~~L  202 (367)
                      ++..+.-.++.||||+|||+++-.+
T Consensus       201 al~~~~~~lI~GPPGTGKT~ti~~~  225 (646)
T 4b3f_X          201 ALSQKELAIIHGPPGTGKTTTVVEI  225 (646)
T ss_dssp             HHHCSSEEEEECCTTSCHHHHHHHH
T ss_pred             HhcCCCceEEECCCCCCHHHHHHHH
Confidence            3333334556799999999865443

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=80.64  E-value=0.6  Score=39.56  Aligned_cols=20  Identities=35%  Similarity=0.453  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus        25 ki~~vG~~~vGKSsli~~l~   44 (190)
T 1m2o_B           25 KLLFLGLDNAGKTTLLHMLK   44 (190)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47788999999999987764

>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=80.64  E-value=0.59  Score=41.31  Aligned_cols=21  Identities=19%  Similarity=0.376  Sum_probs=17.6

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      --+.++|++|+||||+++.+.
T Consensus        30 ~~i~lvG~~g~GKStlin~l~   50 (239)
T 3lxx_A           30 LRIVLVGKTGAGKSATGNSIL   50 (239)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHc
Confidence            347889999999999988765

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=80.50  E-value=0.65  Score=38.99  Aligned_cols=21  Identities=33%  Similarity=0.401  Sum_probs=17.6

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -.+.++|++|+|||++++.|.
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~   43 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYA   43 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            457889999999999987754

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=80.48  E-value=0.57  Score=42.47  Aligned_cols=20  Identities=35%  Similarity=0.529  Sum_probs=17.1

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+||||+++.|.
T Consensus         5 ~i~lvG~~g~GKTTL~n~l~   24 (271)
T 3k53_A            5 TVALVGNPNVGKTTIFNALT   24 (271)
T ss_dssp             EEEEEECSSSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            36788999999999988764

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=80.36  E-value=0.78  Score=43.94  Aligned_cols=24  Identities=13%  Similarity=0.054  Sum_probs=19.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .++++|++|+|||++++.+...+.
T Consensus        37 ~~~i~G~~G~GKs~~~~~~~~~~~   60 (392)
T 4ag6_A           37 NWTILAKPGAGKSFTAKMLLLREY   60 (392)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEcCCCCCHHHHHHHHHHHHH
Confidence            357789999999999998876553

>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=80.35  E-value=0.62  Score=39.23  Aligned_cols=21  Identities=19%  Similarity=0.251  Sum_probs=17.6

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      .+.++|++|+||||+++.|..
T Consensus        10 ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A           10 RVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHc
Confidence            478899999999999887653

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=80.33  E-value=0.55  Score=39.39  Aligned_cols=21  Identities=33%  Similarity=0.468  Sum_probs=17.2

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .-+.++|++|+|||++++.+.
T Consensus        17 ~ki~ivG~~~vGKSsL~~~l~   37 (181)
T 1fzq_A           17 VRILLLGLDNAGKTTLLKQLA   37 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHh
Confidence            347789999999999987654

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=80.29  E-value=1  Score=39.02  Aligned_cols=47  Identities=17%  Similarity=0.188  Sum_probs=29.6

Q ss_pred             hHHHHHHHHhcC--CcccchhhHHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSETK--DPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~~--~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++.+.+....  .+..+|...-..+.....+++.+|+|+|||.++-.
T Consensus        12 ~~~l~~~l~~~g~~~~~~~Q~~~i~~~~~~~~~lv~a~TGsGKT~~~~~   60 (219)
T 1q0u_A           12 QPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLL   60 (219)
T ss_dssp             CHHHHHHHHHTTCCSCCHHHHHHHHHHHHTCCEEEECCSSHHHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHHHH
Confidence            456777775432  34455655444333445678889999999987543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=80.29  E-value=0.58  Score=48.04  Aligned_cols=21  Identities=43%  Similarity=0.431  Sum_probs=18.2

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +-++||+|+||||++++|+..
T Consensus       106 ~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          106 LGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCChHHHHHHHHhcC
Confidence            567899999999999998754

>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=80.28  E-value=0.68  Score=38.30  Aligned_cols=20  Identities=25%  Similarity=0.290  Sum_probs=16.9

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .+.++|++|+|||++++.+.
T Consensus        10 ki~v~G~~~~GKssl~~~~~   29 (182)
T 3bwd_D           10 KCVTVGDGAVGKTCLLISYT   29 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47788999999999987654

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=80.26  E-value=0.88  Score=41.97  Aligned_cols=23  Identities=13%  Similarity=0.200  Sum_probs=19.0

Q ss_pred             hhheeccccCCCchhhHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ..+++.|++|+|||++++.+.+.
T Consensus        32 ~~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           32 PLTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCcCCHHHHHHHHHHH
Confidence            56778899999999998876643

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=80.24  E-value=0.59  Score=38.66  Aligned_cols=20  Identities=25%  Similarity=0.418  Sum_probs=16.8

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus         9 ki~~vG~~~vGKTsli~~l~   28 (178)
T 2iwr_A            9 RLGVLGDARSGKSSLIHRFL   28 (178)
T ss_dssp             EEEEECCGGGCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            36788999999999987764

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=80.17  E-value=0.67  Score=39.07  Aligned_cols=20  Identities=20%  Similarity=0.270  Sum_probs=16.5

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+|||++++.+.
T Consensus        22 ki~ivG~~~vGKSsL~~~~~   41 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYL   41 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            37788999999999986544

>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=80.12  E-value=0.57  Score=47.67  Aligned_cols=22  Identities=27%  Similarity=0.311  Sum_probs=18.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||+||||||++++|+..+
T Consensus       372 ~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          372 VALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5678999999999999987654

>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=80.11  E-value=0.8  Score=42.40  Aligned_cols=26  Identities=31%  Similarity=0.206  Sum_probs=21.6

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      ..+.++|++|+||||+...|+..+..
T Consensus        99 ~~i~i~g~~G~GKTT~~~~la~~~~~  124 (295)
T 1ls1_A           99 NLWFLVGLQGSGKTTTAAKLALYYKG  124 (295)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            34667799999999999999987753

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=80.05  E-value=0.68  Score=39.30  Aligned_cols=20  Identities=25%  Similarity=0.406  Sum_probs=17.0

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      -+.++|++|+||||+++.|.
T Consensus        10 ki~v~G~~~~GKSsli~~l~   29 (207)
T 1vg8_A           10 KVIILGDSGVGKTSLMNQYV   29 (207)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            47788999999999987764

>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=80.04  E-value=1.1  Score=45.66  Aligned_cols=43  Identities=21%  Similarity=0.286  Sum_probs=31.0

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT  233 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t  233 (367)
                      -+++.|.+|||||++++.+...+-....       ...|..+.++||...
T Consensus       216 HlLIaG~TGSGKS~~L~tlI~sLl~~~s-------P~ev~lilIDpKg~e  258 (574)
T 2iut_A          216 HLLVAGTTGSGKSVGVNAMLLSILFKST-------PSEARLIMIDPKMLE  258 (574)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHHTTCC-------TTTEEEEEECSSSHH
T ss_pred             eeEEECCCCCCHHHHHHHHHHHHHHhCC-------CcceEEEEeCCChhh
Confidence            3677899999999999998766542211       124778889999643

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=80.03  E-value=0.29  Score=45.84  Aligned_cols=22  Identities=18%  Similarity=0.270  Sum_probs=18.1

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      .+.++|++|+||||+++.|...
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             EEEEECCCCCCHHHHHHHhccc
Confidence            4678899999999999987643

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	367
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.57
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.8
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.5
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.43
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.4
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	97.28
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.16
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.04
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.95
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.94
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.91
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.83
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.72
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.64
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.48
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.47
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.36
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.26
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.12
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.05
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.96
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.95
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	95.91
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.78
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.74
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.72
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.71
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.52
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.5
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.48
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.46
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	95.45
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.44
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.4
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.4
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.38
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.33
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.29
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	95.26
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.23
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.15
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	95.14
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.13
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.08
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.03
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	94.98
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.95
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	94.89
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.85
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.83
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.79
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	94.76
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	94.71
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	94.5
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.48
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	94.29
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.21
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	94.08
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	94.06
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	93.81
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	93.67
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	93.58
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	93.23
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.21
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	93.16
d1j8yf2	211	GTPase domain of the signal sequence recognition p	92.91
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	92.89
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	92.76
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	92.71
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	92.47
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	92.44
d2qy9a2	211	GTPase domain of the signal recognition particle r	92.36
d1okkd2	207	GTPase domain of the signal recognition particle r	92.27
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	92.16
d1vmaa2	213	GTPase domain of the signal recognition particle r	92.06
d2awna2	232	Maltose transport protein MalK, N-terminal domain	91.95
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	91.93
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	91.9
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	91.76
d1g2912	240	Maltose transport protein MalK, N-terminal domain	91.63
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	91.61
d1ls1a2	207	GTPase domain of the signal sequence recognition p	91.6
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	91.39
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	91.31
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	91.3
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	91.24
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	91.11
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	91.08
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	90.8
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.4
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	90.38
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	90.35
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	90.3
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	90.08
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	90.06
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	89.93
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	89.93
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	89.93
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	89.9
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	89.73
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	89.7
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	89.63
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	89.6
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	89.25
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	89.1
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	88.89
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	88.59
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	88.53
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	88.46
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	88.29
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	88.24
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	87.91
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	87.85
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	87.81
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	87.76
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	87.57
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	87.56
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	87.49
d1nrjb_	209	Signal recognition particle receptor beta-subunit	87.38
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.38
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	87.31
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	87.16
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	86.96
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	86.77
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	86.73
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	86.72
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	86.29
d2fh5b1	207	Signal recognition particle receptor beta-subunit	86.27
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	86.2
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	85.97
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	85.96
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	85.72
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	85.47
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	85.35
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	85.32
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	85.2
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	85.14
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	85.07
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	85.01
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	84.91
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	84.81
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	84.79
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	84.55
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	84.37
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	84.33
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	83.85
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	83.58
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	83.54
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	83.36
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	83.32
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	83.23
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	83.19
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	83.11
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	83.03
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	82.9
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	82.75
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	82.71
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	82.7
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	82.63
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	82.59
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	82.56
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	82.53
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	82.53
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	82.51
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	82.37
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	82.29
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	82.28
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	82.07
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	82.05
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	82.0
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	81.91
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	81.8
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	81.7
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	81.63
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	81.59
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	81.57
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	81.54
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	81.53
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	81.52
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	81.42
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	81.26
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	81.03
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	81.02
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	81.02
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	80.99
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	80.88
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	80.85
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	80.59
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	80.54
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	80.43
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	80.35
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	80.32
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	80.28
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	80.26
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	80.11
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	80.01

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.57  E-value=6.1e-09  Score=91.15  Aligned_cols=150  Identities=12%  Similarity=0.079  Sum_probs=89.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      .|+++|.||+|+|||++++.+++.+........      ...-...++..+..+.-.+.+.....++...+-...+|+..
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~   97 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGH------KSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVT   97 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTT------BCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHhccccccccc------ccccccchhhhhhhccccccchhhhhhcccccccchhhHHh
Confidence            467999999999999999999988742211100      00000000000111111111111112333333333344432


Q ss_pred             c-----CCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecc
Q psy4734         262 V-----STTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFEL  336 (367)
Q Consensus       262 ~-----~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~  336 (367)
                      .     ......+++|+| ++|....+..|++|.   .+-       ..+++..|||-++++...-|+..|||-.+.+.+
T Consensus        98 ~~~~~~~~~~~~kviIid-e~d~l~~~a~n~Llk---~lE-------ep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~  166 (207)
T d1a5ta2          98 EKLNEHARLGGAKVVWVT-DAALLTDAAANALLK---TLE-------EPPAETWFFLATREPERLLATLRSRCRLHYLAP  166 (207)
T ss_dssp             HHTTSCCTTSSCEEEEES-CGGGBCHHHHHHHHH---HHT-------SCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             hhhhhccccCccceEEec-hhhhhhhhhhHHHHH---HHH-------hhcccceeeeeecChhhhhhhhcceeEEEecCC
Confidence            2     233467899999 899988888888761   111       136788899999999999999999999999985


Q ss_pred             cCCchHHHHHHHHHH
Q psy4734         337 KCISWTTFFLSYQNE  351 (367)
Q Consensus       337 ~~~~~~~~~~swl~~  351 (367)
                      -.   ..-+..||..
T Consensus       167 ~~---~~~~~~~L~~  178 (207)
T d1a5ta2         167 PP---EQYAVTWLSR  178 (207)
T ss_dssp             CC---HHHHHHHHHH
T ss_pred             CC---HHHHHHHHHH
Confidence            54   2455666654

>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=97.80  E-value=1e-05  Score=70.25  Aligned_cols=124  Identities=15%  Similarity=0.130  Sum_probs=72.4

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcC
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVS  263 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~  263 (367)
                      .++|.||+|+||||+++.++..+..-...         .....+|.....-...           ....+..........
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~~l~~~~~~---------~~~~~~n~~~~~~~~~-----------i~~~~~~~~~~~~~~   97 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAHELLGRSYA---------DGVLELNASDDRGIDV-----------VRNQIKHFAQKKLHL   97 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHHGGGHH---------HHEEEECTTSCCSHHH-----------HHTHHHHHHHBCCCC
T ss_pred             eEEEECCCCCCchhhHHHHHHHHhccccc---------cccccccccccCCcee-----------hhhHHHHHHHhhccC
Confidence            37889999999999999999887532111         1122344443221000           001111111111122


Q ss_pred             CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         264 TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       264 ~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                      .....+.+|+| .+|...-+.-+.++      ..    .-..+.+.++++-+.+.....|+..|||-.+++.+-.
T Consensus        98 ~~~~~kviiiD-e~d~~~~~~~~~ll------~~----~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~  161 (224)
T d1sxjb2          98 PPGKHKIVILD-EADSMTAGAQQALR------RT----MELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLS  161 (224)
T ss_dssp             CTTCCEEEEEE-SGGGSCHHHHHTTH------HH----HHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCC
T ss_pred             CCcceEEEEEe-cccccchhHHHHHh------hh----ccccccceeeeeccCchhhhhhHHHHHHHHhhhcccc
Confidence            34556899999 44443333333321      10    0123557788999999999999999999999998765

>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=97.50  E-value=0.00012  Score=63.94  Aligned_cols=33  Identities=18%  Similarity=0.257  Sum_probs=28.2

Q ss_pred             CCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         306 SNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       306 ~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                      +++++||+-+.++...-|+..|||..+++.+-.
T Consensus       159 ~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~  191 (252)
T d1sxje2         159 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPS  191 (252)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCC
T ss_pred             cccccceeeeccccchhhhhhcchheeeecccc
Confidence            556788999999999999999999999997654

>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=97.43  E-value=5.8e-05  Score=65.50  Aligned_cols=129  Identities=19%  Similarity=0.171  Sum_probs=71.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc-
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV-  262 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~-  262 (367)
                      .++|.||+|+|||++++++++.+..-..         ......+|.....             .+.+ +. ..+.+... 
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~l~~~~~---------~~~~~e~n~s~~~-------------~~~~-~~-~~~~~~~~~  102 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARELFGENW---------RHNFLELNASDER-------------GINV-IR-EKVKEFART  102 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHGGGH---------HHHEEEEETTCHH-------------HHHT-TH-HHHHHHHHS
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHHhccc---------CCCeeEEecCccc-------------chhH-HH-HHHHHHHhh
Confidence            3789999999999999999987742111         1112223332111             0110 01 11111111 


Q ss_pred             --CCCCCceEEEEcCCCChHhhhhhhh---ccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEeccc
Q psy4734         263 --STTPDRKWIMFDGPIDAVWIENMNT---VLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELK  337 (367)
Q Consensus       263 --~~~~~~~wivfDG~~d~~wie~lns---vlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~  337 (367)
                        .......-+++| ++|...-+..+.   +++.             -..++.+++-+.+....-++..|||..+.+.+-
T Consensus       103 ~~~~~~~~~iilid-e~d~~~~~~~~~ll~~l~~-------------~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~  168 (231)
T d1iqpa2         103 KPIGGASFKIIFLD-EADALTQDAQQALRRTMEM-------------FSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPL  168 (231)
T ss_dssp             CCGGGCSCEEEEEE-TGGGSCHHHHHHHHHHHHH-------------TTTTEEEEEEESCGGGSCHHHHHTEEEEECCCC
T ss_pred             hhccCCCceEEeeh-hhhhcchhHHHHHhhhccc-------------CCcceEEEeccCChhhchHhHhCcccccccccc
Confidence              122345667777 444333333222   2221             133556788888888888999999999999865


Q ss_pred             C-CchHHHHHHHHH
Q psy4734         338 C-ISWTTFFLSYQN  350 (367)
Q Consensus       338 ~-~~~~~~~~swl~  350 (367)
                      . -.+..++..-+.
T Consensus       169 ~~~~~~~~l~~~~~  182 (231)
T d1iqpa2         169 RDEDIAKRLRYIAE  182 (231)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHH
Confidence            3 345555554444

>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=97.40  E-value=0.00013  Score=62.47  Aligned_cols=129  Identities=18%  Similarity=0.266  Sum_probs=79.7

Q ss_pred             HHHHHh--hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccch
Q psy4734         175 LKKIFE--VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGI  252 (367)
Q Consensus       175 l~k~~~--~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGi  252 (367)
                      +.++++  ..+.++|.||+|+|||++...|+..+......        ...+..++|..-+    .| +|.         
T Consensus         6 l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~--------h~D~~~i~~~~~~----I~-Id~---------   63 (198)
T d2gnoa2           6 LKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPK--------ASDVLEIDPEGEN----IG-IDD---------   63 (198)
T ss_dssp             HHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCC--------TTTEEEECCSSSC----BC-HHH---------
T ss_pred             HHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccC--------CCCEEEEeCCcCC----CC-HHH---------
Confidence            445554  33558889999999999999988765433211        1124445664211    11 111         


Q ss_pred             HHHHHHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceee
Q psy4734         253 LAKTFREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGM  331 (367)
Q Consensus       253 l~~~~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~  331 (367)
                      +-.+.+.+... .....|-+|+| ++|..=.+.-|++|-   +|     |  ..|++..||+=+++....-|+..|||-.
T Consensus        64 IR~i~~~~~~~~~~~~~KviIId-~ad~l~~~aqNaLLK---~L-----E--EPp~~t~fiLit~~~~~ll~TI~SRC~~  132 (198)
T d2gnoa2          64 IRTIKDFLNYSPELYTRKYVIVH-DCERMTQQAANAFLK---AL-----E--EPPEYAVIVLNTRRWHYLLPTIKSRVFR  132 (198)
T ss_dssp             HHHHHHHHTSCCSSSSSEEEEET-TGGGBCHHHHHHTHH---HH-----H--SCCTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HHHHHHHHhhCcccCCCEEEEEe-CccccchhhhhHHHH---HH-----h--CCCCCceeeeccCChhhCHHHHhcceEE
Confidence            11233333322 23567899999 466555566666541   00     1  1356788888899999999999999999


Q ss_pred             EEecc
Q psy4734         332 IYFEL  336 (367)
Q Consensus       332 v~~~~  336 (367)
                      +++.+
T Consensus       133 i~~~~  137 (198)
T d2gnoa2         133 VVVNV  137 (198)
T ss_dssp             EECCC
T ss_pred             EeCCC
Confidence            99974

>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=97.28  E-value=0.00017  Score=66.28  Aligned_cols=141  Identities=20%  Similarity=0.279  Sum_probs=89.1

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhcc---------ccc-----cceeE----EEEeCCCCCccccccceec
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSA---------TMK-----EFKTG----YKIINPKSITMGQLYGEFD  242 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~---------~~~-----~~~v~----~~~inpka~t~~~l~G~~d  242 (367)
                      ..|++++.|+||+|||++.+.++..|-.+......         ..+     ...+.    ...-.+...+.+.++|.+|
T Consensus        27 ~~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d  106 (333)
T d1g8pa_          27 GIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALD  106 (333)
T ss_dssp             GGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSGGGSCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEEC
T ss_pred             CCCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCccccccchhhccccCcccccCceeeccCCCCcccccCcch
Confidence            56789999999999999999988766322211100         000     00000    0112355677888999876


Q ss_pred             cc------ccccccchHHHHHHHHhcCCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEe
Q psy4734         243 SA------SHEWRDGILAKTFREMAVSTTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFE  314 (367)
Q Consensus       243 ~~------~~~W~dGil~~~~r~~~~~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE  314 (367)
                      ..      ....+.|.++.+=          ..-+++|  +..++.-.+.|-.+|++.....=..|..+.+|-.+.++. 
T Consensus       107 ~~~~~~~g~~~~~~G~l~~A~----------~gvl~iDEi~~~~~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~lia-  175 (333)
T d1g8pa_         107 IERAISKGEKAFEPGLLARAN----------RGYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVG-  175 (333)
T ss_dssp             HHHHHHHCGGGEECCHHHHHT----------TEEEEETTGGGSCHHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEE-
T ss_pred             hhhccccCcceeecccccccc----------ccEeecccHHHHHHHHHHHHhhhhcCCeEEecccCceecCCCCEEEEE-
Confidence            42      2235567665552          2567777  556787788888888776444334677888888876655 


Q ss_pred             cCCC--CccCcchhhceeeE
Q psy4734         315 CENL--EFASPATVSRVGMI  332 (367)
Q Consensus       315 ~~~l--~~asPatvsRcg~v  332 (367)
                      +.|.  ...+|+...|+.+-
T Consensus       176 a~Np~~~~l~~~llDRf~~~  195 (333)
T d1g8pa_         176 SGNPEEGDLRPQLLDRFGLS  195 (333)
T ss_dssp             EECSCSCCCCHHHHTTCSEE
T ss_pred             ecCccccccccchhhhhcce
Confidence            4443  34789999999763

>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=97.16  E-value=4.9e-05  Score=65.88  Aligned_cols=130  Identities=15%  Similarity=0.136  Sum_probs=69.8

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccce-ecc-c-ccccccchHHHHHHHHh
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE-FDS-A-SHEWRDGILAKTFREMA  261 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~-~d~-~-~~~W~dGil~~~~r~~~  261 (367)
                      ++|.||+|+||||+++.+++.+.......        .....+|.......+..+. +.. . ......+.     ....
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~l~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~  102 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKELYGPDLMK--------SRILELNASDERGISIVREKVKNFARLTVSKPSK-----HDLE  102 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHHHHHT--------TSEEEECSSSCCCHHHHTTHHHHHHHSCCCCCCT-----THHH
T ss_pred             EEEECCCCCChHHHHHHHHHHHcCCcccc--------cchhheeccccccchHHHHHHHHHhhhhhhhhhH-----HHHh
Confidence            78899999999999999998774433211        1122234332211111110 000 0 00000000     0011


Q ss_pred             cCCCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccC
Q psy4734         262 VSTTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKC  338 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~  338 (367)
                      .......+.+|+| .+|...-+.-|.++-   .+       -.-+.+..+++=+.+....-++..|||-.+.+.+-.
T Consensus       103 ~~~~~~~~viiiD-e~d~l~~~~~~~l~~---~~-------~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f~~~~  168 (237)
T d1sxjd2         103 NYPCPPYKIIILD-EADSMTADAQSALRR---TM-------ETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALD  168 (237)
T ss_dssp             HSCCCSCEEEEET-TGGGSCHHHHHHHHH---HH-------HHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCC
T ss_pred             hccccCceEEEEe-cccccCHHHHHHHhh---cc-------ccccccccccccccccccccccccchhhhhcccccc
Confidence            1234456789999 555554444443321   00       012345567888888888889999999999998654

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.04  E-value=0.00064  Score=62.16  Aligned_cols=132  Identities=25%  Similarity=0.292  Sum_probs=80.0

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC----ccccccceecccccccccchHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI----TMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~----t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ++|+||+|+|||.+.+.|++.+-...         .+  ...++-...    ....|+|.-..-.+.=..|.++..+++.
T Consensus        56 ~lf~Gp~G~GKt~lak~la~~l~~~~---------~~--~~~~~~~~~~~~~~~~~L~g~~~gyvG~~~~~~l~~~~~~~  124 (315)
T d1qvra3          56 FLFLGPTGVGKTELAKTLAATLFDTE---------EA--MIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRR  124 (315)
T ss_dssp             EEEBSCSSSSHHHHHHHHHHHHHSSG---------GG--EEEECTTTCCSSGGGGGC--------------CHHHHHHHC
T ss_pred             EEEECCCcchHHHHHHHHHHHhcCCC---------cc--eEEEeccccccchhhhhhcCCCCCCcCcccCChHHHHHHhC
Confidence            56889999999999999999873111         11  223343332    3455666421100111247788888753


Q ss_pred             hcCCCCCceEEEEcCCC---ChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCC-------------------
Q psy4734         261 AVSTTPDRKWIMFDGPI---DAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENL-------------------  318 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~---d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l-------------------  318 (367)
                            ...-|+|| ++   ++.-.+.|-.++|+ ..++-++|..+.+.+.  +++=|+++                   
T Consensus       125 ------p~~Vvl~D-EieK~~~~v~~~ll~~l~~-g~~~~~~gr~v~~~~~--i~i~tsnlG~~~i~~~~~~~~~~~~~~  194 (315)
T d1qvra3         125 ------PYSVILFD-EIEKAHPDVFNILLQILDD-GRLTDSHGRTVDFRNT--VIILTSNLGSPLILEGLQKGWPYERIR  194 (315)
T ss_dssp             ------SSEEEEES-SGGGSCHHHHHHHHHHHTT-TEECCSSSCCEECTTE--EEEEECCTTHHHHHHHHHTTCCHHHHH
T ss_pred             ------CCcEEEEe-hHhhcCHHHHHHHHHHhcc-CceeCCCCcEecCcce--EEEEecccChHHHhhhcccccchhhhh
Confidence                  45688999 44   56666777777766 4677788888887653  44446675                   


Q ss_pred             --------CccCcchhhceeeE-Eeccc
Q psy4734         319 --------EFASPATVSRVGMI-YFELK  337 (367)
Q Consensus       319 --------~~asPatvsRcg~v-~~~~~  337 (367)
                              ..-.|..++|+..| .+.+-
T Consensus       195 ~~~~~~l~~~f~pEflnRid~Ii~F~~L  222 (315)
T d1qvra3         195 DEVFKVLQQHFRPEFLNRLDEIVVFRPL  222 (315)
T ss_dssp             HHHHHHHHTTSCHHHHHTCSBCCBCCCC
T ss_pred             HHHHHHHHhhcCHHHHhcCCeeeeccch
Confidence                    45889999999855 45544

>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=96.95  E-value=0.00093  Score=57.24  Aligned_cols=129  Identities=15%  Similarity=0.097  Sum_probs=70.2

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhcCC
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAVST  264 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~~~  264 (367)
                      ++|.||+|+|||++++.+++.+......         .....++.....     |      ............. .....
T Consensus        38 lLl~Gp~G~GKttl~~~la~~l~~~~~~---------~~~~e~~~~~~~-----~------~~~~~~~~~~~~~-~~~~~   96 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAREIYGKNYS---------NMVLELNASDDR-----G------IDVVRNQIKDFAS-TRQIF   96 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHTTSHH---------HHEEEECTTSCC-----S------HHHHHTHHHHHHH-BCCSS
T ss_pred             EEEECCCCCChhHHHHHHHHHhhcCCCc---------ceeEEecccccC-----C------eeeeecchhhccc-ccccc
Confidence            7889999999999999998876422110         011112222110     0      0111111111111 11123


Q ss_pred             CCCceEEEEcCCCChH---hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEecccCCch
Q psy4734         265 TPDRKWIMFDGPIDAV---WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFELKCISW  341 (367)
Q Consensus       265 ~~~~~wivfDG~~d~~---wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~~~~~~~  341 (367)
                      ....+-+|+|. +|..   -...|-..+++             .+.+..+++=+.+.....|+..|||-.+.+.+-.   
T Consensus        97 ~~~~kiiiiDe-~d~~~~~~~~~Ll~~le~-------------~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~---  159 (227)
T d1sxjc2          97 SKGFKLIILDE-ADAMTNAAQNALRRVIER-------------YTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLP---  159 (227)
T ss_dssp             SCSCEEEEETT-GGGSCHHHHHHHHHHHHH-------------TTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCC---
T ss_pred             CCCeEEEEEec-cccchhhHHHHHHHHhhh-------------cccceeeccccCcHHHhHHHHHHHHhhhcccccc---
Confidence            34567999983 3332   22223233222             2346667777778888999999999999987644   


Q ss_pred             HHHHHHHHHH
Q psy4734         342 TTFFLSYQNE  351 (367)
Q Consensus       342 ~~~~~swl~~  351 (367)
                      ..-+..++..
T Consensus       160 ~~~i~~~l~~  169 (227)
T d1sxjc2         160 QEAIERRIAN  169 (227)
T ss_dssp             HHHHHHHHHH
T ss_pred             cccccccccc
Confidence            2445556654

>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=96.94  E-value=0.00041  Score=63.47  Aligned_cols=130  Identities=19%  Similarity=0.222  Sum_probs=78.7

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCC----CccccccceecccccccccchHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKS----ITMGQLYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka----~t~~~l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      .++|+||+|+|||.+.+.|++++.              +....++...    -....|.|....--+.=..|.+...+++
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~~l~--------------~~~i~~d~s~~~~~~~~~~l~g~~~gy~g~~~~~~l~~~~~~  119 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSKALG--------------IELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIK  119 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT--------------CEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHTTHHHHHHHH
T ss_pred             EEEEECCCcchhHHHHHHHHhhcc--------------CCeeEeccccccchhhhhhhcccCCCccccccCChhhHHHHh
Confidence            477899999999999999998863              1122233222    2345566653111111223667776664


Q ss_pred             HhcCCCCCceEEEEcCCC---ChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCC-----------------
Q psy4734         260 MAVSTTPDRKWIMFDGPI---DAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLE-----------------  319 (367)
Q Consensus       260 ~~~~~~~~~~wivfDG~~---d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~-----------------  319 (367)
                            ....-++|| .+   ++.-...|-.+|| +..++-++|..+...+.+  ++=|+++.                 
T Consensus       120 ------~~~~vvl~D-eieKa~~~V~~~lLqild-~G~ltd~~Gr~vdf~n~i--iI~Tsnig~~~i~~~~~~~~~~~~~  189 (315)
T d1r6bx3         120 ------HPHAVLLLD-EIEKAHPDVFNILLQVMD-NGTLTDNNGRKADFRNVV--LVMTTNAGVRETERKSIGLIHQDNS  189 (315)
T ss_dssp             ------CSSEEEEEE-TGGGSCHHHHHHHHHHHH-HSEEEETTTEEEECTTEE--EEEEECSSCC---------------
T ss_pred             ------Cccchhhhc-ccccccchHhhhhHHhhc-cceecCCCCCccCccceE--EEeccchhhHHHHhhhccchhhhhh
Confidence                  345688888 44   4444455555554 456788888888776554  33366653                 


Q ss_pred             ---------ccCcchhhceee-EEeccc
Q psy4734         320 ---------FASPATVSRVGM-IYFELK  337 (367)
Q Consensus       320 ---------~asPatvsRcg~-v~~~~~  337 (367)
                               +..|-.+.|+.. |++.+-
T Consensus       190 ~~~~~~l~~~f~pEflnRid~ii~f~~l  217 (315)
T d1r6bx3         190 TDAMEEIKKIFTPEFRNRLDNIIWFDHL  217 (315)
T ss_dssp             --CHHHHHHHSCHHHHTTCSEEEECCCC
T ss_pred             HhHHHHHHHhcCHHHHhhhhhhhcccch
Confidence                     367788888874 455553

>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=96.91  E-value=0.0017  Score=56.48  Aligned_cols=136  Identities=17%  Similarity=0.179  Sum_probs=70.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccc---cccceecccccccccch--HHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMG---QLYGEFDSASHEWRDGI--LAKT  256 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~---~l~G~~d~~~~~W~dGi--l~~~  256 (367)
                      .|.++|.||+|+|||++++.+++.+..-.....   ....+.   .+...+..+   +++ .+|....   .|+  +-.+
T Consensus        34 ~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~---~~~~~~---~~~~~i~~~~~~~~~-~~~~~~~---~~i~~ir~~  103 (239)
T d1njfa_          34 HHAYLFSGTRGVGKTSIARLLAKGLNCETGITA---TPCGVC---DNCREIEQGRFVDLI-EIDAASR---TKVEDTRDL  103 (239)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCS---SCCSCS---HHHHHHHHTCCTTEE-EEETTCS---SSHHHHHHH
T ss_pred             CeeEEEECCCCCcHHHHHHHHHHHhcCcccccc---Cccccc---hHHHHHHcCCCCeEE-Eecchhc---CCHHHHHHH
Confidence            356889999999999999998877643211000   000000   000000000   111 1222110   111  1122


Q ss_pred             HHHHhcC-CCCCceEEEEcCCCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhhceeeEEec
Q psy4734         257 FREMAVS-TTPDRKWIMFDGPIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVSRVGMIYFE  335 (367)
Q Consensus       257 ~r~~~~~-~~~~~~wivfDG~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvsRcg~v~~~  335 (367)
                      +..+... .....+-+|+| ++|..-.+..|.++      ..-  |  ..+++.+||+=+.+....-|+..|||-.+.+.
T Consensus       104 ~~~~~~~~~~~~~kviiId-e~d~l~~~~q~~Ll------k~l--E--~~~~~~~~il~tn~~~~i~~~i~SRc~~i~~~  172 (239)
T d1njfa_         104 LDNVQYAPARGRFKVYLID-EVHMLSRHSFNALL------KTL--E--EPPEHVKFLLATTDPQKLPVTILSRCLQFHLK  172 (239)
T ss_dssp             HHSCCCSCSSSSSEEEEEE-TGGGSCHHHHHHHH------HHH--H--SCCTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             HHHHHhccccCCCEEEEEE-CcccCCHHHHHHHH------HHH--h--cCCCCeEEEEEcCCccccChhHhhhhcccccc
Confidence            2222222 22356789999 44443333333322      100  1  12567789999999999999999999999998


Q ss_pred             ccC
Q psy4734         336 LKC  338 (367)
Q Consensus       336 ~~~  338 (367)
                      +-.
T Consensus       173 ~~~  175 (239)
T d1njfa_         173 ALD  175 (239)
T ss_dssp             CCC
T ss_pred             cCc
Confidence            754

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.83  E-value=0.0013  Score=56.65  Aligned_cols=122  Identities=16%  Similarity=0.247  Sum_probs=65.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHhc
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMAV  262 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~~  262 (367)
                      +.++|.||||+|||++.+.+++.++.              ....++.....               ..|-+...+...  
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~~~~--------------~~~~~~~~~~~---------------~~~~~~~~~~~~--   84 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASELQT--------------NIHVTSGPVLV---------------KQGDMAAILTSL--   84 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHHTC--------------CEEEEETTTCC---------------SHHHHHHHHHHC--
T ss_pred             CeEEEECCCCCcHHHHHHHHHhccCC--------------CcccccCcccc---------------cHHHHHHHHHhh--
Confidence            45889999999999999998876531              11122211110               112223333322  


Q ss_pred             CCCCCceEEEEc--CCCChHhhhhhhhccCCCCceeec----ccceeec-CCCCeEEEecCCCCccCcchhhceeeE-Ee
Q psy4734         263 STTPDRKWIMFD--GPIDAVWIENMNTVLDDNKKLCLI----NGEIIKM-SNTMNLIFECENLEFASPATVSRVGMI-YF  334 (367)
Q Consensus       263 ~~~~~~~wivfD--G~~d~~wie~lnsvlddn~~l~L~----~ge~i~l-~~~~~~ifE~~~l~~asPatvsRcg~v-~~  334 (367)
                         ....-+++|  -.++..--+.+..++.+.....+.    +...+.. .+++.+|+-+.+.....|+..+||..+ ++
T Consensus        85 ---~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~~~~~~  161 (238)
T d1in4a2          85 ---ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILEL  161 (238)
T ss_dssp             ---CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEEC
T ss_pred             ---ccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCccccccceeeeeEEEEe
Confidence               233556666  223333334444444443332221    1122222 346788999999999999999999764 66


Q ss_pred             cccC
Q psy4734         335 ELKC  338 (367)
Q Consensus       335 ~~~~  338 (367)
                      .+..
T Consensus       162 ~~~~  165 (238)
T d1in4a2         162 DFYT  165 (238)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            6544

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.72  E-value=0.00053  Score=60.83  Aligned_cols=138  Identities=17%  Similarity=0.218  Sum_probs=77.5

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ...|+++.||||+|||++.+.+++.++              ..+..+++..+. +.+.|.    +    ..-+..+++.+
T Consensus        44 ~~~~iLL~GppGtGKT~la~~iA~~~~--------------~~~~~i~~~~l~-~~~~g~----~----~~~l~~~f~~A  100 (256)
T d1lv7a_          44 IPKGVLMVGPPGTGKTLLAKAIAGEAK--------------VPFFTISGSDFV-EMFVGV----G----ASRVRDMFEQA  100 (256)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHT--------------CCEEEECSCSST-TSCCCC----C----HHHHHHHHHHH
T ss_pred             CCCeEEeeCCCCCCccHHHHHHHHHcC--------------CCEEEEEhHHhh-hcchhH----H----HHHHHHHHHHH
Confidence            356799999999999999999887652              234456665543 223331    1    22355666655


Q ss_pred             hcCCCCCceEEEEcCCCChH--------------hhhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchh
Q psy4734         261 AVSTTPDRKWIMFDGPIDAV--------------WIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATV  326 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~--------------wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatv  326 (367)
                      .   ...+..+++| ++|..              ....++++|.        .-|.+.-.+++-+|.-|.+...+.||..
T Consensus       101 ~---~~~P~il~iD-eiD~l~~~r~~~~~~~~~~~~~~~~~ll~--------~~d~~~~~~~v~vIatTn~~~~ld~al~  168 (256)
T d1lv7a_         101 K---KAAPCIIFID-EIDAVGRQRGAGLGGGHDEREQTLNQMLV--------EMDGFEGNEGIIVIAATNRPDVLDPALL  168 (256)
T ss_dssp             H---TTCSEEEEET-THHHHTCCCSTTSCCTTCHHHHHHHHHHH--------HHHTCCSSSCEEEEEEESCTTTSCGGGG
T ss_pred             H---HcCCEEEEEE-ChhhhCccCCCCCCCCcHHHHHHHHHHHH--------HhhCCCCCCCEEEEEeCCCcccCCHhHc
Confidence            3   2345566677 33221              1111222221        0011112234556667777788888887


Q ss_pred             --hce-eeEEecccCCc-hHHHHHHHHHHhh
Q psy4734         327 --SRV-GMIYFELKCIS-WTTFFLSYQNELK  353 (367)
Q Consensus       327 --sRc-g~v~~~~~~~~-~~~~~~swl~~~~  353 (367)
                        +|. -.|++++-+.. -..++..|+.+.+
T Consensus       169 R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~  199 (256)
T d1lv7a_         169 RPGRFDRQVVVGLPDVRGREQILKVHMRRVP  199 (256)
T ss_dssp             STTSSCEEEECCCCCHHHHHHHHHHHHTTSC
T ss_pred             CCCCCCEEEECCCcCHHHHHHHHHHhccCCC
Confidence              355 57888866543 3457777776654

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.64  E-value=0.00022  Score=57.02  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=21.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..++|+||+||||||+.+.|++.|
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            357889999999999999999876

>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=96.48  E-value=0.0063  Score=52.23  Aligned_cols=24  Identities=33%  Similarity=0.376  Sum_probs=20.8

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+++|.||||+|||++.+++++.+
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999987654

>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=96.47  E-value=0.00072  Score=56.90  Aligned_cols=22  Identities=18%  Similarity=0.306  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||..+.|++.+
T Consensus         9 IiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           9 AAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHB
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5678999999999999988764

>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=96.36  E-value=0.0012  Score=57.42  Aligned_cols=24  Identities=38%  Similarity=0.361  Sum_probs=20.5

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..++|.||||+||||+++++++.+
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~~   76 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQEL   76 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH
Confidence            347889999999999999988754

>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=96.26  E-value=0.0021  Score=53.06  Aligned_cols=22  Identities=18%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||..+.|++.+
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            5678999999999999999877

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.12  E-value=0.0011  Score=53.80  Aligned_cols=24  Identities=21%  Similarity=0.325  Sum_probs=21.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      |.|+|+|||||||+.+.|++.|+.
T Consensus         9 I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           9 IFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            667899999999999999998864

>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=96.05  E-value=0.003  Score=51.92  Aligned_cols=22  Identities=23%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||..+.|++.+
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            4678999999999999998876

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.96  E-value=0.0022  Score=53.34  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||..+.|++.+
T Consensus         4 I~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           4 VFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999998866

>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=95.95  E-value=0.0013  Score=53.10  Aligned_cols=22  Identities=32%  Similarity=0.330  Sum_probs=19.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|+|||||||+.+.|++.+
T Consensus         7 I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           7 ILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5678999999999999988765

>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=95.91  E-value=0.0011  Score=53.44  Aligned_cols=22  Identities=32%  Similarity=0.452  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||+.+.|++.+
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            5678999999999999988765

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=95.78  E-value=0.0013  Score=57.38  Aligned_cols=25  Identities=16%  Similarity=0.271  Sum_probs=21.6

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+++|.||||+|||++.+.|+..+
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568999999999999999888765

>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=95.74  E-value=0.0011  Score=53.94  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=19.9

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++|+||||+.+.|++.+
T Consensus        10 I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2          10 VAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEECCTTSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999998866

>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=95.72  E-value=0.0016  Score=53.40  Aligned_cols=25  Identities=32%  Similarity=0.337  Sum_probs=21.7

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ..++++|++||||||+.+.|++.++
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhC
Confidence            3567889999999999999998874

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.71  E-value=0.0018  Score=52.30  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|+|||||||+.+.|++.+
T Consensus         9 ivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           9 YVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999998876

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.52  E-value=0.0022  Score=58.16  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=22.3

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+++|+||||+|||.+.+.|++.+
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHhhcc
Confidence            4779999999999999999998865

>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=95.50  E-value=0.0019  Score=52.25  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=20.1

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +++.|+|||||||+.+.|++.++
T Consensus         8 I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           8 ILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEEeCCCCCHHHHHHHHHHHhC
Confidence            67789999999999999987653

>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=95.48  E-value=0.0022  Score=52.22  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=21.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.++|+||+||||+.+.|++.++
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhC
Confidence            367889999999999999998873

>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=95.46  E-value=0.0026  Score=51.79  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.++||+|+||||+++.++..+.
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCC
Confidence            57889999999999999887764

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=95.45  E-value=0.0016  Score=57.23  Aligned_cols=136  Identities=15%  Similarity=0.189  Sum_probs=71.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      .+|++|.||||+|||++.+.++..++              ..+..+++     .++.+.+-.++    ...+..+++.+.
T Consensus        42 ~~giLl~GppGtGKT~la~aia~~~~--------------~~~~~i~~-----~~l~~~~~g~~----~~~l~~~f~~a~   98 (247)
T d1ixza_          42 PKGVLLVGPPGVGKTHLARAVAGEAR--------------VPFITASG-----SDFVEMFVGVG----AARVRDLFETAK   98 (247)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHTT--------------CCEEEEEH-----HHHHHSCTTHH----HHHHHHHHHHHT
T ss_pred             CceEEEecCCCCChhHHHHHHHHHcC--------------CCEEEEEh-----HHhhhccccHH----HHHHHHHHHHHH
Confidence            46799999999999999999886542              22333333     33333221111    123445555542


Q ss_pred             cCCCCCceEEEEcCCCChHh--------------hhhhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchh-
Q psy4734         262 VSTTPDRKWIMFDGPIDAVW--------------IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATV-  326 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~d~~w--------------ie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatv-  326 (367)
                         ...+..|++| ++|..-              -..++.+|      ..-  |.+.-++++-+|.-|.+.....||.. 
T Consensus        99 ---~~~p~Ii~iD-eid~l~~~r~~~~~~~~~~~~~~~~~ll------~~~--d~~~~~~~vivi~tTn~~~~ld~al~R  166 (247)
T d1ixza_          99 ---RHAPCIVFID-EIDAVGRKRGSGVGGGNDEREQTLNQLL------VEM--DGFEKDTAIVVMAATNRPDILDPALLR  166 (247)
T ss_dssp             ---TSSSEEEEEE-THHHHHC---------CHHHHHHHHHHH------HHH--HTCCTTCCEEEEEEESCGGGSCGGGGS
T ss_pred             ---HcCCEEEEEE-ChhhhCccCCCCCCCCcHHHHHHHHHHH------HHh--hCCCCCCCEEEEEeCCCccccCHhHcC
Confidence               3445688888 333210              00111111      100  11122334435556777888889887 


Q ss_pred             -hcee-eEEecccCC-chHHHHHHHHHHh
Q psy4734         327 -SRVG-MIYFELKCI-SWTTFFLSYQNEL  352 (367)
Q Consensus       327 -sRcg-~v~~~~~~~-~~~~~~~swl~~~  352 (367)
                       +|.. .+++++-+. .-..++..++...
T Consensus       167 ~~Rf~~~i~~~~P~~~eR~~il~~~l~~~  195 (247)
T d1ixza_         167 PGRFDRQIAIDAPDVKGREQILRIHARGK  195 (247)
T ss_dssp             TTSSCEEEECCSCCHHHHHHHHHHHHTTS
T ss_pred             CCCCcEEEEECCcCHHHHHHHHHHHhccc
Confidence             5775 788875443 2344556666443

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=95.44  E-value=0.0021  Score=51.92  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=20.5

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -|++.|++||||||+.+.|++.+.
T Consensus         5 iI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           5 MIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            366789999999999999988763

>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=95.40  E-value=0.0031  Score=50.96  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=22.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      .|++.||+|+||||+++.++..+..-
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            37889999999999999998887653

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=95.40  E-value=0.0021  Score=53.60  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ++++|||||||||+.+.|++.+
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            5678999999999999998866

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.38  E-value=0.0017  Score=53.59  Aligned_cols=24  Identities=33%  Similarity=0.308  Sum_probs=20.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.|+|+|||||||+.+.|++.++.
T Consensus        22 I~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          22 VWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             EEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            447799999999999999988764

>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=95.33  E-value=0.0027  Score=51.65  Aligned_cols=23  Identities=35%  Similarity=0.381  Sum_probs=20.4

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ++|+|++|+||||+.+.|++.++
T Consensus         4 IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            57789999999999999998773

>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=95.29  E-value=0.0031  Score=51.59  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||+.+.|++.+
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            5678999999999999998876

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=95.26  E-value=0.0037  Score=50.17  Aligned_cols=24  Identities=33%  Similarity=0.246  Sum_probs=20.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.++|++||||||+++.|.+.+..
T Consensus         5 i~itG~~GSGKTTL~~~L~~~l~~   28 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIPALCA   28 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            457899999999999999887754

>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=95.23  E-value=0.0029  Score=52.48  Aligned_cols=22  Identities=27%  Similarity=0.369  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ++|+|||||||||..+.|++.+
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            4577999999999999999876

>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=95.15  E-value=0.0029  Score=55.44  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=21.6

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..|++|.||||+|||++.+.++..+
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhhcc
Confidence            3579999999999999999988654

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=95.14  E-value=0.0033  Score=49.73  Aligned_cols=19  Identities=21%  Similarity=0.326  Sum_probs=15.8

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +++.|+|||||||+.+.|.
T Consensus         5 Iii~G~pGsGKTTla~~L~   23 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFI   23 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5678999999999987654

>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=95.13  E-value=0.004  Score=50.51  Aligned_cols=24  Identities=33%  Similarity=0.331  Sum_probs=20.9

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++||||||+.+.|++.++.
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            567799999999999999988753

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=95.08  E-value=0.0037  Score=51.85  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||..+.|++.+
T Consensus         6 I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           6 VMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6678999999999999998776

>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=95.03  E-value=0.0037  Score=51.43  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=19.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|||||||||+.+.|++.+
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            4678999999999999999876

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.98  E-value=0.0028  Score=52.88  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=19.4

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++|||||||||+.+.|++.+
T Consensus        11 I~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_          11 IFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5677999999999999998866

>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=94.95  E-value=0.0045  Score=56.42  Aligned_cols=27  Identities=26%  Similarity=0.505  Sum_probs=21.4

Q ss_pred             hhhhhee-ccccCCCchhhHHHHHHHHH
Q psy4734         181 VRHGLMV-VGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       181 ~~~~v~~-~g~~gsGKTt~~~~L~~al~  207 (367)
                      ...|+.+ +||||+|||.+.+.|+..++
T Consensus       121 ~~~g~~l~~G~pG~GKT~la~ala~~~~  148 (321)
T d1w44a_         121 YASGMVIVTGKGNSGKTPLVHALGEALG  148 (321)
T ss_dssp             EESEEEEEECSSSSCHHHHHHHHHHHHH
T ss_pred             cCCceEEEECCCCccHHHHHHHHHHHhc
Confidence            3456555 79999999999999987664

>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=94.89  E-value=0.0048  Score=50.81  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +++.|||||||||..+.|++.+
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            5577999999999999998865

>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=94.85  E-value=0.0069  Score=52.18  Aligned_cols=25  Identities=20%  Similarity=0.220  Sum_probs=21.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .++++.||||+|||++++.+++.+.
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~l~   68 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWELYK   68 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CceEEECCCCCCHHHHHHHHHHHHh
Confidence            4688999999999999999888774

>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=94.83  E-value=0.062  Score=47.29  Aligned_cols=131  Identities=15%  Similarity=0.165  Sum_probs=71.4

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccc-cccceecccccccccchHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMG-QLYGEFDSASHEWRDGILAKTFRE  259 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~-~l~G~~d~~~~~W~dGil~~~~r~  259 (367)
                      .++.++++||||.|||++++.|+..+..-..    +..-....+..+++.++-.+ ...       ++|.. .+..++.+
T Consensus        38 ~k~n~lLVG~~GvGKTalv~~la~ri~~~~v----p~~l~~~~i~~l~~~~liag~~~~-------g~~e~-r~~~i~~~  105 (268)
T d1r6bx2          38 RKNNPLLVGESGVGKTAIAEGLAWRIVQGDV----PEVMADCTIYSLDIGSLLAGTKYR-------GDFEK-RFKALLKQ  105 (268)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHTCS----CGGGTTCEEEECCCC---CCCCCS-------SCHHH-HHHHHHHH
T ss_pred             ccCCcEEECCCCCcHHHHHHHHHHHHHhCCc----ccccccceeEEeeechHhccCccc-------hhHHH-HHHHHHHH
Confidence            3456899999999999999999876653211    11122334556777766432 122       34432 23445555


Q ss_pred             HhcCCCCCceEEEEcCCCChHh---------hhhhhhccCCCCceeecccceeecCCCCeEEEecCC-----CCccCcch
Q psy4734         260 MAVSTTPDRKWIMFDGPIDAVW---------IENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-----LEFASPAT  325 (367)
Q Consensus       260 ~~~~~~~~~~wivfDG~~d~~w---------ie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-----l~~asPat  325 (367)
                      +..   .+.-.+++| +++...         .+ +..+|-.    .|+.|       .+++|-+|+.     ...-.||.
T Consensus       106 ~~~---~~~iIlfiD-eih~l~~~g~~~g~~~d-~a~~Lkp----~L~rg-------~i~vIgatT~eey~~~~e~d~al  169 (268)
T d1r6bx2         106 LEQ---DTNSILFID-EIHTIIGAGAASGGQVD-AANLIKP----LLSSG-------KIRVIGSTTYQEFSNIFEKDRAL  169 (268)
T ss_dssp             HSS---SSCEEEEET-TTTTTTTSCCSSSCHHH-HHHHHSS----CSSSC-------CCEEEEEECHHHHHCCCCCTTSS
T ss_pred             hhc---cCCceEEec-chHHHhcCCCCCCcccc-HHHHhhH----HHhCC-------CCeEEEeCCHHHHHHHHhhcHHH
Confidence            422   222344445 322210         00 0111111    23334       4778888765     45567999


Q ss_pred             hhceeeEEecccCC
Q psy4734         326 VSRVGMIYFELKCI  339 (367)
Q Consensus       326 vsRcg~v~~~~~~~  339 (367)
                      ..|.-.|.+++.+.
T Consensus       170 ~rrF~~I~V~Eps~  183 (268)
T d1r6bx2         170 ARRFQKIDITEPSI  183 (268)
T ss_dssp             GGGEEEEECCCCCH
T ss_pred             HhhhcccccCCCCH
Confidence            99999999997763

>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=94.79  E-value=0.017  Score=48.97  Aligned_cols=27  Identities=30%  Similarity=0.512  Sum_probs=21.7

Q ss_pred             hhheec--cccCCCchhhHHHHHHHHHHH
Q psy4734         183 HGLMVV--GESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       183 ~~v~~~--g~~gsGKTt~~~~L~~al~~~  209 (367)
                      .|.+++  |+.|+||||..+.|++.|...
T Consensus         2 rG~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           2 RGALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            454444  999999999999999988654

>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=94.76  E-value=0.0037  Score=50.44  Aligned_cols=21  Identities=33%  Similarity=0.474  Sum_probs=17.7

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +++.|+|||||||+.+.|++.
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            567899999999998887654

>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=94.71  E-value=0.0063  Score=50.65  Aligned_cols=25  Identities=32%  Similarity=0.348  Sum_probs=21.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      ++++|.|||||||+.+.|++.++..
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhc
Confidence            5678999999999999999887644

>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=94.50  E-value=0.0065  Score=49.40  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=20.8

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|++|+||||+.+.|++.+..
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            457799999999999999988753

>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=94.48  E-value=0.0046  Score=51.49  Aligned_cols=24  Identities=25%  Similarity=0.347  Sum_probs=20.2

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .-+++.|||||||||..+.|++.+
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            346778999999999999988765

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=94.29  E-value=0.0084  Score=51.92  Aligned_cols=27  Identities=26%  Similarity=0.183  Sum_probs=22.5

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHh
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAA  211 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~  211 (367)
                      +.+.||||+|||++.+.+++.+.....
T Consensus        49 l~l~GppGtGKT~l~~~l~~~l~~~~~   75 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKRVSEAAA   75 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHHHhhcc
Confidence            456799999999999999998876543

>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=94.21  E-value=0.0069  Score=51.13  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.1

Q ss_pred             eeccccCCCchhhHHHHHHHHH
Q psy4734         186 MVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       186 ~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.|||||||||..+.|++.++
T Consensus         7 aIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           7 AIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             EEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEECCCCCCHHHHHHHHHHHhC
Confidence            3559999999999999998874

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=94.08  E-value=0.0099  Score=48.67  Aligned_cols=25  Identities=36%  Similarity=0.376  Sum_probs=20.9

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      |-+.|++||||||+.+.|++.+...
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            3467999999999999999887653

>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=94.06  E-value=0.0064  Score=53.41  Aligned_cols=136  Identities=18%  Similarity=0.196  Sum_probs=72.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHHh
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREMA  261 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~~  261 (367)
                      ..|+++.||||+|||++.+.++..++              .....+++..+... ..|.-        ..-+..+++.+.
T Consensus        38 ~~giLL~GppGtGKT~l~~ala~~~~--------------~~~~~i~~~~l~~~-~~g~~--------~~~l~~~f~~A~   94 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLIARAVANETG--------------AFFFLINGPEIMSK-LAGES--------ESNLRKAFEEAE   94 (258)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHTT--------------CEEEEECHHHHTTS-CTTHH--------HHHHHHHHHHHH
T ss_pred             CceeEEecCCCCCchHHHHHHHHHhC--------------CeEEEEEchhhccc-ccccH--------HHHHHHHHHHHH
Confidence            56899999999999999888776542              23333443332211 11110        112334444432


Q ss_pred             cCCCCCceEEEEcCCCChHhhh-----------hhhhccCCCCceeecccceeecCCCCeEEEecCCCCccCcchhh--c
Q psy4734         262 VSTTPDRKWIMFDGPIDAVWIE-----------NMNTVLDDNKKLCLINGEIIKMSNTMNLIFECENLEFASPATVS--R  328 (367)
Q Consensus       262 ~~~~~~~~wivfDG~~d~~wie-----------~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~l~~asPatvs--R  328 (367)
                         ...+..|++| ++|...-.           .++.++      .  .-+.+.-++++-+|.-|.+...+-||...  |
T Consensus        95 ---~~~p~il~iD-eid~l~~~r~~~~~~~~~~~~~~~~------~--~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gR  162 (258)
T d1e32a2          95 ---KNAPAIIFID-ELDAIAPKREKTHGEVERRIVSQLL------T--LMDGLKQRAHVIVMAATNRPNSIDPALRRFGR  162 (258)
T ss_dssp             ---HTCSEEEEES-SGGGTCCHHHHCCCTTHHHHHHHHH------H--HHHTCCCSSCEEEEEEESCGGGSCGGGTSTTS
T ss_pred             ---hcCCeEEEeh-hhhhhccCCCCCCCchHHHHHHHhc------c--ccccccccCCccEEEeCCCccccchhhhhccc
Confidence               2356778887 44433211           111111      1  11223344456567778788889998875  5


Q ss_pred             e-eeEEecccCCchH-HHHHHHHHHh
Q psy4734         329 V-GMIYFELKCISWT-TFFLSYQNEL  352 (367)
Q Consensus       329 c-g~v~~~~~~~~~~-~~~~swl~~~  352 (367)
                      . -.|+++..+..=+ .++..|+...
T Consensus       163 fd~~i~~~~P~~~~R~~il~~~l~~~  188 (258)
T d1e32a2         163 FDREVDIGIPDATGRLEILQIHTKNM  188 (258)
T ss_dssp             SCEEEECCCCCHHHHHHHHHHTTTTS
T ss_pred             ccceeECCCCCHHHHHHHhhhhccCc
Confidence            6 5777876554333 3455555443

>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=93.81  E-value=0.01  Score=49.80  Aligned_cols=22  Identities=32%  Similarity=0.422  Sum_probs=19.0

Q ss_pred             eeccccCCCchhhHHHHHHHHH
Q psy4734         186 MVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       186 ~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      .+.|||||||+|..+.|++.++
T Consensus         7 ~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           7 TIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEECCCCCCHHHHHHHHHHHhC
Confidence            3459999999999999998874

>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=93.67  E-value=0.04  Score=48.55  Aligned_cols=124  Identities=12%  Similarity=0.103  Sum_probs=70.2

Q ss_pred             chhhHHHHHh----hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCC-CCccccccceecccc
Q psy4734         171 VQPHLKKIFE----VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPK-SITMGQLYGEFDSAS  245 (367)
Q Consensus       171 lq~~l~k~~~----~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpk-a~t~~~l~G~~d~~~  245 (367)
                      +..+++.++.    -+..+.+.||+++|||+.+.++.+.+....             . +.+-+ .-....+.       
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~~~-------------~-~~~~~~~f~l~~l~-------  147 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPFYG-------------C-VNWTNENFPFNDCV-------  147 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSSCEE-------------E-CCTTCSSCTTGGGS-------
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHhcchh-------------h-ccccCCCccccccC-------
Confidence            3334555543    345688889999999999988877653211             0 01111 11122222       


Q ss_pred             cccccchHHHHHHHHhcCCCCCceEEEEcCC-CChHhhhhhhhccCCCCc-eeecccceeecCCCCeEEEecCCCCc---
Q psy4734         246 HEWRDGILAKTFREMAVSTTPDRKWIMFDGP-IDAVWIENMNTVLDDNKK-LCLINGEIIKMSNTMNLIFECENLEF---  320 (367)
Q Consensus       246 ~~W~dGil~~~~r~~~~~~~~~~~wivfDG~-~d~~wie~lnsvlddn~~-l~L~~ge~i~l~~~~~~ifE~~~l~~---  320 (367)
                                           +.+.+++|.+ ......|.+-.+++.+.+ .-.-..+.+.+.+...+|+-..|+..   
T Consensus       148 ---------------------~k~~~~~~e~~~~~~~~~~~K~l~gGd~i~v~~K~k~~~~~~~~p~li~s~n~i~~~~~  206 (267)
T d1u0ja_         148 ---------------------DKMVIWWEEGKMTAKVVESAKAILGGSKVRVDQKCKSSAQIDPTPVIVTSNTNMCAVID  206 (267)
T ss_dssp             ---------------------SCSEEEECSCCEETTTHHHHHHHHTTCCEEC------CCEECCCCEEEEESSCTTCEEE
T ss_pred             ---------------------CCEEEEEeCCCccccHHHHHHHhcCCCceEeecccCCCcEeeCCeEEEEeCCCcccccC
Confidence                                 2345555432 233345556666654332 12233566778888889998888764   


Q ss_pred             -------cCcchhhceeeEEecc
Q psy4734         321 -------ASPATVSRVGMIYFEL  336 (367)
Q Consensus       321 -------asPatvsRcg~v~~~~  336 (367)
                             -+.+.-+|.-++.+..
T Consensus       207 ~~~~~~~~~~~l~~R~~~~~F~~  229 (267)
T d1u0ja_         207 GNSTTFEHQQPLQDRMFKFELTR  229 (267)
T ss_dssp             TTEEECTTHHHHHTTEEEEECCS
T ss_pred             CCccccccchHhhhhEEEEECCC
Confidence                   2568899999999864

>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=93.58  E-value=0.0093  Score=52.61  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=21.9

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..|+++.||+|+|||++.+.++..+
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHh
Confidence            4679999999999999999987765

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.23  E-value=0.014  Score=47.82  Aligned_cols=22  Identities=27%  Similarity=0.446  Sum_probs=17.7

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+|+||||+.+.|.+-.
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhhC
Confidence            5678999999999988776543

>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=93.21  E-value=0.011  Score=56.13  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=22.0

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+.++++||||+|||.+++.||+.+
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999998755

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.16  E-value=0.015  Score=48.10  Aligned_cols=22  Identities=27%  Similarity=0.345  Sum_probs=18.6

Q ss_pred             hheeccccCCCchhhHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      .+.++||+|+||||+.+.|.+.
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            4788999999999998887654

>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=92.91  E-value=0.021  Score=48.62  Aligned_cols=25  Identities=32%  Similarity=0.224  Sum_probs=16.6

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +-++|+||+|+||||++--|+..+.
T Consensus        13 ~vi~lvGptGvGKTTTiAKLA~~~~   37 (211)
T d1j8yf2          13 YVIMLVGVQGTGKATTAGKLAYFYK   37 (211)
T ss_dssp             EEEEEECSCCC----HHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4478899999999999888886654

>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=92.89  E-value=0.015  Score=47.62  Aligned_cols=19  Identities=32%  Similarity=0.275  Sum_probs=15.9

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|+|||||||..+.+.
T Consensus        17 iil~G~pGsGKST~a~~l~   35 (172)
T d1yj5a2          17 VVAVGFPGAGKSTFIQEHL   35 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6778999999999877653

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.76  E-value=0.021  Score=47.42  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=19.2

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      .+.++||+|+||||+.+.|++..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            36789999999999988877654

>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=92.71  E-value=0.021  Score=51.86  Aligned_cols=33  Identities=21%  Similarity=0.333  Sum_probs=27.9

Q ss_pred             hhHHHHHhhhhhheeccccCCCchhhHHHHHHH
Q psy4734         173 PHLKKIFEVRHGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       173 ~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ..+..+...+..+++.|++||||||+++.|...
T Consensus       157 ~~l~~~v~~~~nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         157 SAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             HHHHHHHHHTCCEEEEESTTSSHHHHHHHHGGG
T ss_pred             HHHHHHHHhCCCEEEEeeccccchHHHHHHhhh
Confidence            457788889999999999999999998876543

>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=92.47  E-value=0.027  Score=45.20  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=20.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +-++|.+||||||++..|...|...
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            3478999999999999888877643

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.44  E-value=0.018  Score=48.28  Aligned_cols=24  Identities=21%  Similarity=0.347  Sum_probs=19.9

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      |.+.|++||||||+.+.|++.++.
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEECCCCCCHHHHHHHHHHHhch
Confidence            346799999999999999887753

>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=92.36  E-value=0.026  Score=48.08  Aligned_cols=25  Identities=32%  Similarity=0.352  Sum_probs=20.3

Q ss_pred             hhheeccccCCCchhhHHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +-++|+||+|+||||++--|+..+.
T Consensus        10 ~vi~lvGptGvGKTTTiAKLA~~~~   34 (211)
T d2qy9a2          10 FVILMVGVNGVGKTTTIGKLARQFE   34 (211)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3478899999999998888876553

>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=92.27  E-value=0.023  Score=48.22  Aligned_cols=24  Identities=33%  Similarity=0.308  Sum_probs=19.3

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -++++||+|+||||++--|+..+.
T Consensus         8 vi~lvGptGvGKTTTiaKLA~~~~   31 (207)
T d1okkd2           8 VVLVVGVNGVGKTTTIAKLGRYYQ   31 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            367899999999998877876543

>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=92.16  E-value=0.021  Score=52.73  Aligned_cols=24  Identities=38%  Similarity=0.522  Sum_probs=20.7

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..++|+||+|+|||.+.+.||+.+
T Consensus        69 ~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          69 SNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cceeeeCCCCccHHHHHHHHHhhc
Confidence            448899999999999999988754

>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=92.06  E-value=0.032  Score=47.54  Aligned_cols=24  Identities=42%  Similarity=0.443  Sum_probs=19.9

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++|+||+|+||||++--|+..+
T Consensus        12 ~vi~lvGptGvGKTTTiAKLAa~~   35 (213)
T d1vmaa2          12 FVIMVVGVNGTGKTTSCGKLAKMF   35 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            347889999999999888887665

>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=91.95  E-value=0.025  Score=48.90  Aligned_cols=21  Identities=33%  Similarity=0.393  Sum_probs=17.8

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +-++||+||||||++++++..
T Consensus        29 ~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          29 VVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCChHHHHHHHHhcC
Confidence            567899999999999987643

>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=91.93  E-value=0.021  Score=49.32  Aligned_cols=21  Identities=24%  Similarity=0.316  Sum_probs=17.7

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +-++||+||||||++++++..
T Consensus        34 ~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          34 VSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCcchhhHhccCC
Confidence            667899999999999987643

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.90  E-value=0.026  Score=46.50  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=18.0

Q ss_pred             hhheeccccCCCchhhHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      ..+.++||+|+||+|+.+.|.+
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3477899999999999886654

>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=91.76  E-value=0.035  Score=51.77  Aligned_cols=32  Identities=22%  Similarity=0.468  Sum_probs=24.8

Q ss_pred             HHHHHhhhhhhee-ccccCCCchhhHHHHHHHH
Q psy4734         175 LKKIFEVRHGLMV-VGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       175 l~k~~~~~~~v~~-~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++....+|+++ .||+||||||++..+...+
T Consensus       150 l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         150 FRRLIKRPHGIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             HHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHHHhhhhceEEEEcCCCCCccHHHHHHhhhh
Confidence            5566777788655 5999999999988876655

>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=91.63  E-value=0.028  Score=48.79  Aligned_cols=22  Identities=32%  Similarity=0.406  Sum_probs=18.5

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        32 ~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          32 MILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHhcCC
Confidence            6678999999999999877543

>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=91.61  E-value=0.038  Score=46.63  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=20.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.|.|.|||||||+.+.|++.+..
T Consensus        27 IwltGlsGsGKTTia~~L~~~l~~   50 (208)
T d1m7ga_          27 IWLTGLSASGKSTLAVELEHQLVR   50 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            667899999999999999887754

>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=91.60  E-value=0.038  Score=46.81  Aligned_cols=24  Identities=33%  Similarity=0.205  Sum_probs=20.0

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      -++++||+|+||||++--|+..+.
T Consensus        12 vi~lvGp~GvGKTTTiaKLA~~~~   35 (207)
T d1ls1a2          12 LWFLVGLQGSGKTTTAAKLALYYK   35 (207)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            367799999999999888887664

>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=91.39  E-value=0.033  Score=51.28  Aligned_cols=25  Identities=24%  Similarity=0.185  Sum_probs=21.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+++|.||||+|||++.+.|+..+
T Consensus       154 ~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         154 KRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3578999999999999999988766

>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=91.31  E-value=0.032  Score=48.41  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=18.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            4478999999999999977543

>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=91.30  E-value=0.025  Score=49.12  Aligned_cols=21  Identities=29%  Similarity=0.246  Sum_probs=17.9

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +-++||+||||||++++++..
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            667899999999999987653

>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=91.24  E-value=0.033  Score=48.33  Aligned_cols=22  Identities=36%  Similarity=0.410  Sum_probs=18.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||+||||||++++++..+
T Consensus        35 ~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          35 LVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5678999999999999876543

>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=91.11  E-value=0.071  Score=48.26  Aligned_cols=47  Identities=28%  Similarity=0.350  Sum_probs=29.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccce
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGE  240 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~  240 (367)
                      +-+.|+||+||||++..|..++...         +.+|-+..++|.+. +-+.++|.
T Consensus        57 IgitG~pGaGKSTLi~~l~~~~~~~---------g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          57 LGVTGTPGAGKSTFLEAFGMLLIRE---------GLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHT---------TCCEEEEEECCC-----------
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHHhc---------CCceeeecCCCceeeeccccccc
Confidence            6678999999999999988776432         34677777888874 55555553

>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=91.08  E-value=0.024  Score=48.92  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=18.6

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.++||+||||||++++++..+
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCc
Confidence            6678999999999999977543

>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=90.80  E-value=0.04  Score=46.40  Aligned_cols=21  Identities=29%  Similarity=0.341  Sum_probs=17.4

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+|+||||+.+.|.+.
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            456799999999999887654

>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=90.40  E-value=0.048  Score=42.57  Aligned_cols=19  Identities=37%  Similarity=0.511  Sum_probs=16.4

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+||||+++.+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~   21 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLK   21 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            5789999999999988764

>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=90.38  E-value=0.036  Score=48.06  Aligned_cols=24  Identities=25%  Similarity=0.248  Sum_probs=19.4

Q ss_pred             hhheeccccCCCchhhHHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..+.++|++||||||++++|...+
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            337789999999999999876543

>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=90.35  E-value=0.037  Score=46.52  Aligned_cols=22  Identities=32%  Similarity=0.283  Sum_probs=18.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||.||||||++++++..+
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCChHHHHHHHHhccc
Confidence            5578999999999999976543

>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=90.30  E-value=0.061  Score=44.44  Aligned_cols=25  Identities=20%  Similarity=0.300  Sum_probs=20.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.+.|+.||||||+.+.|++.+...
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            3456999999999999999887643

>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=90.08  E-value=0.028  Score=48.83  Aligned_cols=21  Identities=33%  Similarity=0.373  Sum_probs=18.1

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +-++||+||||||++++++..
T Consensus        34 ~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          34 FGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             EEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHHcC
Confidence            667899999999999987753

>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=90.06  E-value=0.099  Score=47.15  Aligned_cols=47  Identities=28%  Similarity=0.376  Sum_probs=34.8

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCC-ccccccce
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSI-TMGQLYGE  240 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~-t~~~l~G~  240 (367)
                      +-+.|+||+||||++..|..++...         +.+|-+..++|.+- +-+.++|.
T Consensus        54 igitG~pGaGKSTli~~l~~~~~~~---------g~~vaViavDpss~~~gg~llgd  101 (323)
T d2qm8a1          54 VGITGVPGVGKSTTIDALGSLLTAA---------GHKVAVLAVDPSSTRTGGSILGD  101 (323)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHT---------TCCEEEEEECGGGGSSCCCSSCC
T ss_pred             EeeeCCCCCCHHHHHHHHHHHHhhc---------CCceeeeecccccHHHHhccccc
Confidence            6678999999999999888765422         34677777888774 56666664

>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=89.93  E-value=0.042  Score=47.68  Aligned_cols=23  Identities=30%  Similarity=0.369  Sum_probs=18.8

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+-++||+||||||++++|...+
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            36678999999999999876543

>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=89.93  E-value=0.039  Score=48.19  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=18.9

Q ss_pred             hhheeccccCCCchhhHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ..+.++||+||||||++++|..-
T Consensus        42 e~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCChHHHHHHHHhcc
Confidence            34778999999999999987643

>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=89.93  E-value=0.06  Score=45.36  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=18.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|++|+||||+++.|...+
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Confidence            4567999999999998876554

>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=89.90  E-value=0.063  Score=44.72  Aligned_cols=25  Identities=28%  Similarity=0.464  Sum_probs=20.9

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.|.|+.||||||..+.|++.|...
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L~~~   29 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETLEQL   29 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhC
Confidence            3456999999999999999988643

>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=89.73  E-value=0.068  Score=44.74  Aligned_cols=132  Identities=13%  Similarity=0.161  Sum_probs=68.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccc-cccceecccccccccchHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMG-QLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~-~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      +..++++|+||.|||++++.|+..+..-..    +..-....++.+++.++-.+ ...       ++|.. -+..++.+.
T Consensus        43 k~n~lLvG~pGVGKTalv~~LA~ri~~~~v----p~~L~~~~i~~ld~~~LiAg~~~r-------G~~E~-rl~~il~e~  110 (195)
T d1jbka_          43 KNNPVLIGEPGVGKTAIVEGLAQRIINGEV----PEGLKGRRVLALDMGALVAGAKYR-------GEFEE-RLKGVLNDL  110 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHHHHHTCS----CGGGTTCEEEEECHHHHHTTTCSH-------HHHHH-HHHHHHHHH
T ss_pred             CCCeEEEecCCcccHHHHHHHHHHHHhCCC----CHHHcCceEEEeeHHHHhccCCcc-------HHHHH-HHHHHHHHH
Confidence            456899999999999999999877653210    01111223444555554211 111       23433 344555554


Q ss_pred             hcCCCCCceEEEEcCCCChHhhhhhhhccCCCC---ceeecccceee---cCCCCeEEEecCC-----CCccCcchhhce
Q psy4734         261 AVSTTPDRKWIMFDGPIDAVWIENMNTVLDDNK---KLCLINGEIIK---MSNTMNLIFECEN-----LEFASPATVSRV  329 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~wie~lnsvlddn~---~l~L~~ge~i~---l~~~~~~ifE~~~-----l~~asPatvsRc  329 (367)
                      ....  +.-.+++|         .+++++....   -+.++  +.++   -...+++|.+|+.     .-.--||...|.
T Consensus       111 ~~~~--~~iILfID---------eih~l~~~g~~~g~~d~~--~~Lkp~L~rg~l~~IgatT~eey~~~~e~d~aL~rrF  177 (195)
T d1jbka_         111 AKQE--GNVILFID---------ELHTMVGAGKADGAMDAG--NMLKPALARGELHCVGATTLDEYRQYIEKDAALERRF  177 (195)
T ss_dssp             HHST--TTEEEEEE---------TGGGGTT------CCCCH--HHHHHHHHTTSCCEEEEECHHHHHHHTTTCHHHHTTE
T ss_pred             hcCC--CcEEEEcc---------hHHHHhcCCCCCCcccHH--HHHHHHHhCCCceEEecCCHHHHHHHHHcCHHHHhcC
Confidence            3221  12344555         2333332111   00000  1111   1345788888875     344578999999


Q ss_pred             eeEEecccC
Q psy4734         330 GMIYFELKC  338 (367)
Q Consensus       330 g~v~~~~~~  338 (367)
                      ..|.+++.+
T Consensus       178 ~~I~V~Ep~  186 (195)
T d1jbka_         178 QKVFVAEPS  186 (195)
T ss_dssp             EEEECCCCC
T ss_pred             CEeecCCCC
Confidence            999997654

>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=89.70  E-value=0.17  Score=40.35  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=18.0

Q ss_pred             hheeccccCCCchhhHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      .|.++|++|+||||+++.|..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            577899999999999987753

>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=89.63  E-value=0.1  Score=45.28  Aligned_cols=46  Identities=22%  Similarity=0.258  Sum_probs=34.6

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccce
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE  240 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~  240 (367)
                      +++.|..|.||||+.-.|+.++.+.         +.+|-....+|. -+...+||.
T Consensus        11 i~~sGKGGVGKTTvaa~lA~~lA~~---------G~rVLlvD~Dp~-~~l~~~lg~   56 (296)
T d1ihua1          11 LFFTGKGGVGKTSISCATAIRLAEQ---------GKRVLLVSTDPA-SNVGQVFSQ   56 (296)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHT---------TCCEEEEECCTT-CCHHHHTTS
T ss_pred             EEEECCCcChHHHHHHHHHHHHHHC---------CCCEEEEeCCCC-CCHHHHhCC
Confidence            5667999999999999999888754         346777778884 456666653

>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=89.60  E-value=0.052  Score=47.33  Aligned_cols=23  Identities=26%  Similarity=0.237  Sum_probs=18.9

Q ss_pred             hheeccccCCCchhhHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      -+-++||+||||||+++++...+
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            36788999999999999876543

>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=89.25  E-value=0.027  Score=46.36  Aligned_cols=22  Identities=23%  Similarity=0.277  Sum_probs=18.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +.+.|+.||||||+++.|++.+
T Consensus        12 I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1          12 VLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             EEEECSTTSCHHHHHHTTGGGT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4456999999999999887655

>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=89.10  E-value=0.059  Score=47.77  Aligned_cols=21  Identities=24%  Similarity=0.352  Sum_probs=17.8

Q ss_pred             heeccccCCCchhhHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      +.++||+||||||+++++...
T Consensus        65 vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          65 LAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCChHHHHHHHHhCC
Confidence            667899999999999987643

>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=88.89  E-value=0.065  Score=45.99  Aligned_cols=25  Identities=44%  Similarity=0.603  Sum_probs=19.7

Q ss_pred             hhhhh--heeccccCCCchhhHHHHHH
Q psy4734         180 EVRHG--LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       180 ~~~~~--v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.++|  +.++||+|+||||++++++.
T Consensus        21 ~I~~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          21 EVRAGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EEETTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            34444  56789999999999998875

>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=88.59  E-value=0.079  Score=41.49  Aligned_cols=19  Identities=32%  Similarity=0.457  Sum_probs=16.2

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+||||+++.+.
T Consensus         8 I~ivG~~~vGKSSLi~~~~   26 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQ   26 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6789999999999987653

>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=88.53  E-value=0.095  Score=43.53  Aligned_cols=47  Identities=17%  Similarity=0.188  Sum_probs=32.7

Q ss_pred             hHHHHHHHHhcC--CcccchhhHHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSETK--DPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~~--~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++++.+.+..  .+..+|...-..+-..+.+++.+|+|||||.++-.
T Consensus         9 ~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvii~a~TGSGKTlayll   57 (209)
T d1q0ua_           9 QPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLL   57 (209)
T ss_dssp             CHHHHHHHHHTTCCSCCHHHHHHHHHHHHTCCEEEECCSSHHHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCeEeecccccccceeeee
Confidence            567888887643  46667776444443445588899999999987643

>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=88.46  E-value=0.061  Score=47.03  Aligned_cols=20  Identities=25%  Similarity=0.373  Sum_probs=17.3

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +-++||+||||||+.++++.
T Consensus        31 ~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          31 ISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             EEEECCTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCcHHHHHHHHHc
Confidence            56789999999999998764

>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=88.29  E-value=0.066  Score=43.14  Aligned_cols=20  Identities=30%  Similarity=0.365  Sum_probs=17.6

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      +|.++|+|++||||+++.|.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~   21 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLT   21 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            57899999999999988764

>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=88.24  E-value=0.1  Score=46.29  Aligned_cols=23  Identities=17%  Similarity=0.192  Sum_probs=19.1

Q ss_pred             eccccCCCchhhHHHHHHHHHHH
Q psy4734         187 VVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       187 ~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.|++||||||+...|...+...
T Consensus        32 i~G~qGSGKSTl~~~l~~~L~~~   54 (286)
T d1odfa_          32 FSGPQGSGKSFTSIQIYNHLMEK   54 (286)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHHH
T ss_pred             eECCCCCCHHHHHHHHHHHHHHH
Confidence            56999999999998888777554

>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=87.91  E-value=0.086  Score=46.82  Aligned_cols=25  Identities=24%  Similarity=0.283  Sum_probs=17.5

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +-+.|++||||||+.+.|...+...
T Consensus         7 IgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             EEEESCC---CCTHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhhc
Confidence            3467999999999999998877643

>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=87.85  E-value=0.072  Score=42.48  Aligned_cols=21  Identities=33%  Similarity=0.390  Sum_probs=17.3

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .-+.++|++|+||||+++.|.
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~   34 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLK   34 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            347889999999999977653

>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=87.81  E-value=0.086  Score=43.03  Aligned_cols=18  Identities=28%  Similarity=0.337  Sum_probs=15.6

Q ss_pred             eccccCCCchhhHHHHHH
Q psy4734         187 VVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       187 ~~g~~gsGKTt~~~~L~~  204 (367)
                      +.|++||||||+.+.|.+
T Consensus         8 itG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           8 ITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             EEECTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            569999999999988754

>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=87.76  E-value=0.096  Score=40.59  Aligned_cols=19  Identities=37%  Similarity=0.496  Sum_probs=16.2

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++++|||++++.|.
T Consensus         3 I~liG~~nvGKSSLln~l~   21 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLK   21 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            5688999999999987654

>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=87.57  E-value=0.076  Score=45.88  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=18.2

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||+|+||||++++++..+
T Consensus        35 ~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          35 VTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5578999999999999876543

>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=87.56  E-value=0.1  Score=44.33  Aligned_cols=23  Identities=17%  Similarity=0.144  Sum_probs=18.3

Q ss_pred             hhheeccccCCCchhhHHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLADS  205 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~a  205 (367)
                      ..+++.||+|+|||++++.++..
T Consensus        30 ~~i~i~G~~G~GKTsLl~~~~~~   52 (283)
T d2fnaa2          30 PITLVLGLRRTGKSSIIKIGINE   52 (283)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCcHHHHHHHHHHH
Confidence            34678899999999998876544

>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=87.49  E-value=0.09  Score=41.66  Aligned_cols=18  Identities=33%  Similarity=0.547  Sum_probs=15.8

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      ++++|++|+|||++++.|
T Consensus         5 i~ivG~~~~GKTsLi~~l   22 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKF   22 (165)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            678999999999998765

>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=87.38  E-value=0.1  Score=42.82  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=17.9

Q ss_pred             hhheeccccCCCchhhHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      ..|+++|+|++||||+++.|.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~   24 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLT   24 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            357899999999999987764

>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=87.31  E-value=0.062  Score=43.23  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=19.0

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      ..|+|+.||||||++.++.-++
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4567999999999999988776

>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=87.16  E-value=0.13  Score=43.21  Aligned_cols=24  Identities=21%  Similarity=0.266  Sum_probs=20.2

Q ss_pred             hheeccccCCCchhhHHHHHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      ++.+.||+|+|||.+++.++..+.
T Consensus        38 ~l~l~G~~G~GKTHLl~A~~~~~~   61 (213)
T d1l8qa2          38 PIFIYGSVGTGKTHLLQAAGNEAK   61 (213)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             cEEEECCCCCcHHHHHHHHHHHhc
Confidence            478899999999999988876654

>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=86.96  E-value=0.085  Score=45.49  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=18.1

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||.|+||||++++++..+
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            4478999999999999877544

>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=86.77  E-value=0.27  Score=39.51  Aligned_cols=24  Identities=21%  Similarity=0.290  Sum_probs=21.1

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|+=|+||||..+.++++++.
T Consensus        36 i~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          36 VYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             EEEecCCCccHHHHHHHHHhhccc
Confidence            557799999999999999998854

>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=86.73  E-value=0.19  Score=41.87  Aligned_cols=46  Identities=22%  Similarity=0.280  Sum_probs=32.5

Q ss_pred             hHHHHHHHHhc--CCcccchhh-HHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSET--KDPLRVQPH-LKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~-l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++++.+.+-  ..|..+|.. +..++++ +-+++.+|+|||||.++-+
T Consensus         9 ~~~l~~~l~~~g~~~pt~iQ~~aip~il~g-~dvl~~A~TGsGKTla~~l   57 (207)
T d1t6na_           9 KPELLRAIVDCGFEHPSEVQHECIPQAILG-MDVLCQAKSGMGKTAVFVL   57 (207)
T ss_dssp             CHHHHHHHHHTTCCCCCHHHHHHHHHHHTT-CCEEEECCTTSCHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHHcC-CCeEEEecccccccccccc
Confidence            56788888764  446667765 4444554 5588889999999988643

>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=86.72  E-value=0.053  Score=47.39  Aligned_cols=22  Identities=32%  Similarity=0.398  Sum_probs=18.2

Q ss_pred             hhheeccccCCCchhhHHHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L~~  204 (367)
                      .-+.++|++||||||++++|..
T Consensus        45 e~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHh
Confidence            3477889999999999888654

>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=86.29  E-value=0.22  Score=41.40  Aligned_cols=47  Identities=23%  Similarity=0.226  Sum_probs=32.7

Q ss_pred             hHHHHHHHHhc--CCcccchhhHHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSET--KDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++++++.+-  ..|..+|...-..+-..+-+++..|+|||||.++-+
T Consensus        11 ~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlayll   59 (206)
T d1veca_          11 KRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLI   59 (206)
T ss_dssp             CHHHHHHHHTTTCCSCCHHHHHHHHHHHTTCCEEEECCSSSTTHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEeeccCcccccccccc
Confidence            56788888754  345667776444444445688889999999988643

>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=86.27  E-value=0.12  Score=42.63  Aligned_cols=20  Identities=30%  Similarity=0.408  Sum_probs=17.1

Q ss_pred             hheeccccCCCchhhHHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L~  203 (367)
                      .|.++|++++||||+++.|.
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~   21 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLL   21 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57889999999999977654

>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=86.20  E-value=0.12  Score=41.24  Aligned_cols=20  Identities=35%  Similarity=0.529  Sum_probs=16.9

Q ss_pred             hhheeccccCCCchhhHHHH
Q psy4734         183 HGLMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       183 ~~v~~~g~~gsGKTt~~~~L  202 (367)
                      .-++++|.+|+||||+++.+
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl   35 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQF   35 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            45889999999999997754

>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=85.97  E-value=0.14  Score=40.89  Aligned_cols=19  Identities=32%  Similarity=0.466  Sum_probs=16.3

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         8 i~vvG~~~vGKTsLi~~l~   26 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYA   26 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6789999999999987654

>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=85.96  E-value=0.043  Score=46.33  Aligned_cols=23  Identities=22%  Similarity=0.260  Sum_probs=19.7

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.+.|+.||||||.++.|++.+.
T Consensus         5 I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           5 ISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             EEEECSTTSSHHHHHTTTGGGCT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            56779999999999999887764

>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=85.72  E-value=0.14  Score=45.76  Aligned_cols=25  Identities=24%  Similarity=0.312  Sum_probs=20.7

Q ss_pred             heeccccCCCchhhHHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      |.+.|++||||||+.+.|+..+...
T Consensus        83 IGIaG~sgSGKSTla~~L~~lL~~~  107 (308)
T d1sq5a_          83 ISIAGSVAVGKSTTARVLQALLSRW  107 (308)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTTS
T ss_pred             EEEeCCCCCCCcHHHHHHHHHHhhh
Confidence            4467999999999999999887543

>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=85.47  E-value=0.11  Score=45.08  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=18.3

Q ss_pred             heeccccCCCchhhHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSL  206 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al  206 (367)
                      +-++||+||||||++++++..+
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHHCCC
Confidence            5678999999999999876543

>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=85.35  E-value=0.14  Score=42.01  Aligned_cols=20  Identities=25%  Similarity=0.373  Sum_probs=16.6

Q ss_pred             hhhheeccccCCCchhhHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~  201 (367)
                      -.|++|.|++|+||||+.-.
T Consensus        14 g~gvl~~G~sG~GKStlal~   33 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALE   33 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHH
Confidence            46789999999999998543

>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=85.32  E-value=0.41  Score=40.29  Aligned_cols=44  Identities=18%  Similarity=0.267  Sum_probs=27.2

Q ss_pred             HHHHHHhc-CCcccchhh-HHHHHhhhhhheeccccCCCchhhHHHH
Q psy4734         158 LLEILSET-KDPLRVQPH-LKKIFEVRHGLMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       158 Ll~ils~~-~~~~~lq~~-l~k~~~~~~~v~~~g~~gsGKTt~~~~L  202 (367)
                      +.+....+ ..|..+|.. +..++.+ ..+++++|+|+|||+++-..
T Consensus        33 ~~~~~~~~~~~p~~~Q~~~i~~~l~g-~~~~i~apTGsGKT~~~~~~   78 (237)
T d1gkub1          33 FVEFFRKCVGEPRAIQKMWAKRILRK-ESFAATAPTGVGKTSFGLAM   78 (237)
T ss_dssp             HHHHHHTTTCSCCHHHHHHHHHHHTT-CCEECCCCBTSCSHHHHHHH
T ss_pred             HHHHHHhccCCCCHHHHHHHHHHHCC-CCEEEEecCCChHHHHHHHH
Confidence            44444432 345566765 4444444 45778899999999875443

>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=85.20  E-value=0.13  Score=42.01  Aligned_cols=19  Identities=26%  Similarity=0.387  Sum_probs=17.3

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|+||+||||+++.|.
T Consensus        26 I~lvG~~n~GKSTLin~L~   44 (195)
T d1svia_          26 IALAGRSNVGKSSFINSLI   44 (195)
T ss_dssp             EEEEEBTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHhc
Confidence            7789999999999999875

>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=85.14  E-value=0.14  Score=43.05  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=19.3

Q ss_pred             heeccccCCCchhhHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLT  207 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~  207 (367)
                      +.|.|+.||||||.++.|++.|.
T Consensus         6 I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHH
Confidence            34569999999999999988764

>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=85.07  E-value=0.13  Score=40.26  Aligned_cols=19  Identities=26%  Similarity=0.539  Sum_probs=16.0

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++++||||+++.|.
T Consensus         4 I~lvG~~nvGKSsLin~l~   22 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALA   22 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            5688999999999987654

>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=85.01  E-value=0.13  Score=43.47  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=20.2

Q ss_pred             heeccccCCCchhhHHHHHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTD  208 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~  208 (367)
                      +.+.|+.||||||.++.|++.+..
T Consensus         5 IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           5 LSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhh
Confidence            456799999999999999887643

>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=84.91  E-value=0.27  Score=41.39  Aligned_cols=53  Identities=19%  Similarity=0.187  Sum_probs=36.1

Q ss_pred             hHHHHHHHHhc--CCcccchhhHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHH
Q psy4734         155 NDELLEILSET--KDPLRVQPHLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      ++.+++++.+-  ..+..+|...-..+...+.++..+++|||||.++-  -..++.+
T Consensus        20 ~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlayl--lp~l~~i   74 (218)
T d2g9na1          20 SESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFA--ISILQQI   74 (218)
T ss_dssp             CHHHHHHHHHHTCCSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHHH--HHHHHHC
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhhh--hhhhhee
Confidence            56788888654  34667787655444455668889999999999873  3344443

>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=84.81  E-value=0.16  Score=41.12  Aligned_cols=18  Identities=39%  Similarity=0.414  Sum_probs=15.6

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      ++++|++|+|||++++.+
T Consensus         8 i~ivG~~~vGKTsLi~~l   25 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRY   25 (186)
T ss_dssp             EEEESCTTSSHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHH
Confidence            678899999999997754

>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=84.79  E-value=0.17  Score=40.04  Aligned_cols=19  Identities=42%  Similarity=0.621  Sum_probs=16.0

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++++|||++++.+.
T Consensus         5 i~i~G~~~~GKTsLl~~l~   23 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIA   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5678999999999987653

>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=84.55  E-value=0.18  Score=39.94  Aligned_cols=19  Identities=32%  Similarity=0.490  Sum_probs=15.9

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~   23 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYC   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            5788999999999987543

>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=84.37  E-value=0.18  Score=40.31  Aligned_cols=18  Identities=17%  Similarity=0.390  Sum_probs=15.5

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      ++++|++|+|||++++.+
T Consensus         6 ivvvG~~~vGKTsli~r~   23 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQF   23 (173)
T ss_dssp             EEEESSTTSSHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHH
Confidence            568899999999998754

>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=84.33  E-value=0.18  Score=42.02  Aligned_cols=19  Identities=26%  Similarity=0.344  Sum_probs=15.9

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +-++|..||||||+.+.|.
T Consensus         6 IgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHH
Confidence            3467999999999988865

>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=83.58  E-value=0.35  Score=40.00  Aligned_cols=46  Identities=24%  Similarity=0.307  Sum_probs=31.6

Q ss_pred             hHHHHHHHHhc--CCcccchhh-HHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSET--KDPLRVQPH-LKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~-l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++++.+.+.  ..+..+|.. +..+++++ .++..+|+|+|||.++-.
T Consensus         9 ~~~l~~~L~~~g~~~pt~iQ~~aip~il~g~-dvi~~a~tGsGKTlay~l   57 (206)
T d1s2ma1           9 KRELLMGIFEAGFEKPSPIQEEAIPVAITGR-DILARAKNGTGKTAAFVI   57 (206)
T ss_dssp             CHHHHHHHHHTTCCSCCHHHHHHHHHHHHTC-CEEEECCTTSCHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHHcCC-CEEEecCCcchhhhhhcc
Confidence            46788888765  345557765 44445554 488889999999987643

>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=83.54  E-value=0.18  Score=42.35  Aligned_cols=25  Identities=24%  Similarity=0.582  Sum_probs=20.5

Q ss_pred             HHhhhhhheeccccCCCchhhHHHH
Q psy4734         178 IFEVRHGLMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       178 ~~~~~~~v~~~g~~gsGKTt~~~~L  202 (367)
                      ++..-+-++++|++|+|||++++-+
T Consensus         2 ~~k~~~KilllG~~~vGKTsll~~~   26 (221)
T d1azta2           2 VYRATHRLLLLGAGESGKSTIVKQM   26 (221)
T ss_dssp             HHHHSEEEEEECSTTSSHHHHHHHH
T ss_pred             cchhcCEEEEECCCCCCHHHHHHHH
Confidence            4555667899999999999998776

>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=83.36  E-value=0.2  Score=39.92  Aligned_cols=19  Identities=21%  Similarity=0.401  Sum_probs=16.3

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         8 i~lvG~~~vGKTsLi~~l~   26 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFT   26 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6789999999999987654

>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=83.32  E-value=0.15  Score=41.77  Aligned_cols=22  Identities=27%  Similarity=0.327  Sum_probs=17.4

Q ss_pred             hhhhheeccccCCCchhhHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L  202 (367)
                      .-.|++|.|++|+||||+.-.|
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l   35 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDL   35 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHH
Confidence            3467899999999999985443

>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=83.23  E-value=0.18  Score=40.20  Aligned_cols=18  Identities=33%  Similarity=0.556  Sum_probs=15.5

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      ++++|++|+|||++++.+
T Consensus        19 I~vvG~~~vGKSsLi~~l   36 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQL   36 (176)
T ss_dssp             EEEEESTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            778999999999997654

>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=83.19  E-value=0.22  Score=39.89  Aligned_cols=19  Identities=21%  Similarity=0.431  Sum_probs=16.2

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         7 i~vvG~~~vGKTsLi~~~~   25 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFT   25 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6789999999999987653

>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=83.11  E-value=0.22  Score=39.49  Aligned_cols=19  Identities=26%  Similarity=0.417  Sum_probs=15.9

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         6 ivlvG~~~vGKTsLi~r~~   24 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYC   24 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            5789999999999987643

>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=83.03  E-value=0.23  Score=45.73  Aligned_cols=130  Identities=18%  Similarity=0.243  Sum_probs=66.8

Q ss_pred             hhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccceecccccccccchHHHHHHHH
Q psy4734         181 VRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGEFDSASHEWRDGILAKTFREM  260 (367)
Q Consensus       181 ~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~~d~~~~~W~dGil~~~~r~~  260 (367)
                      ..+.++++|+||.|||++++-|+..+..-  .  ++..-....+..+++.++-.+-=      -.++|...+ ..++.+.
T Consensus        42 ~k~n~llvG~~GvGKtaiv~~la~~i~~~--~--vp~~l~~~~i~~ld~~~l~ag~~------~~g~~e~r~-~~i~~~~  110 (387)
T d1qvra2          42 TKNNPVLIGEPGVGKTAIVEGLAQRIVKG--D--VPEGLKGKRIVSLQMGSLLAGAK------YRGEFEERL-KAVIQEV  110 (387)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHHHHHHHT--C--SCTTSTTCEEEEECC-----------------CHHHHH-HHHHHHH
T ss_pred             CCCCCeEECCCCCCHHHHHHHHHHHHHhC--C--CCHHHcCceEEEeeHhhhhcccC------cchhHHHHH-HHHHHHh
Confidence            44568999999999999999888765331  1  11111223455566666532211      114565544 4445444


Q ss_pred             hcCCCCCceEEEEcCCCChHhhhhhhhccCC---------CCce--eecccceeecCCCCeEEEecCC-----CCccCcc
Q psy4734         261 AVSTTPDRKWIMFDGPIDAVWIENMNTVLDD---------NKKL--CLINGEIIKMSNTMNLIFECEN-----LEFASPA  324 (367)
Q Consensus       261 ~~~~~~~~~wivfDG~~d~~wie~lnsvldd---------n~~l--~L~~ge~i~l~~~~~~ifE~~~-----l~~asPa  324 (367)
                      ...  .+.-.+++|         .+++++..         ...|  .|+.       ..+++|-+|+.     +. --||
T Consensus       111 ~~~--~~~~ilfid---------e~h~l~~~g~~~g~~d~a~~Lkp~L~r-------g~~~~I~~tT~~ey~~~e-~d~a  171 (387)
T d1qvra2         111 VQS--QGEVILFID---------ELHTVVGAGKAEGAVDAGNMLKPALAR-------GELRLIGATTLDEYREIE-KDPA  171 (387)
T ss_dssp             HTT--CSSEEEEEC---------CC-------------------HHHHHT-------TCCCEEEEECHHHHHHHT-TCTT
T ss_pred             ccC--CCceEEEec---------cHHHHhcCCCCCCcccHHHHHHHHHhC-------CCcceeeecCHHHHHHhc-ccHH
Confidence            322  123345666         22222221         0111  1333       34788888765     32 4689


Q ss_pred             hhhceeeEEecccCCc
Q psy4734         325 TVSRVGMIYFELKCIS  340 (367)
Q Consensus       325 tvsRcg~v~~~~~~~~  340 (367)
                      ...|...|.+++.+..
T Consensus       172 l~rrF~~v~v~ep~~~  187 (387)
T d1qvra2         172 LERRFQPVYVDEPTVE  187 (387)
T ss_dssp             TCSCCCCEEECCCCHH
T ss_pred             HHHhcccccCCCCcHH
Confidence            9999999999987643

>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=82.90  E-value=0.21  Score=39.46  Aligned_cols=19  Identities=21%  Similarity=0.413  Sum_probs=16.0

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         5 i~vvG~~~vGKTSli~~l~   23 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFV   23 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            5688999999999987653

>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=82.75  E-value=0.21  Score=40.63  Aligned_cols=20  Identities=25%  Similarity=0.351  Sum_probs=16.4

Q ss_pred             hhhheeccccCCCchhhHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ..||+|.|++|+||||+.-.
T Consensus        15 g~gvli~G~sg~GKS~la~~   34 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALE   34 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHH
Confidence            45799999999999998533

>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=82.71  E-value=0.45  Score=40.74  Aligned_cols=53  Identities=26%  Similarity=0.392  Sum_probs=32.8

Q ss_pred             HHhhhhhhee-ccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccce
Q psy4734         178 IFEVRHGLMV-VGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYGE  240 (367)
Q Consensus       178 ~~~~~~~v~~-~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G~  240 (367)
                      +-...|.|++ .|..|.||||+.-.|+.++.+.         +.+|-....+|.+ +...++|.
T Consensus        15 ~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~---------G~rVllvD~Dp~~-~l~~~lg~   68 (279)
T d1ihua2          15 IARNEHGLIMLMGKGGVGKTTMAAAIAVRLADM---------GFDVHLTTSDPAA-HLSMTLNG   68 (279)
T ss_dssp             HHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHT---------TCCEEEEESCCC----------
T ss_pred             hhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHC---------CCcEEEEeCCCCC-ChHHHhCC
Confidence            3345555554 5999999999999999988754         3467777888864 45566664

>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=82.70  E-value=0.34  Score=44.05  Aligned_cols=28  Identities=29%  Similarity=0.322  Sum_probs=19.8

Q ss_pred             hhhheeccccCCCchhhHHHHHHHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLADSLTDI  209 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~~al~~~  209 (367)
                      +.-+++.|+||+|||+++..+..++...
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~  190 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQM  190 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHH
Confidence            3445567999999999876665555443

>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=82.63  E-value=0.19  Score=41.66  Aligned_cols=18  Identities=28%  Similarity=0.211  Sum_probs=15.3

Q ss_pred             eeccccCCCchhhHHHHH
Q psy4734         186 MVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       186 ~~~g~~gsGKTt~~~~L~  203 (367)
                      -++|..||||||+.+.|.
T Consensus         6 gITG~igSGKStv~~~l~   23 (205)
T d1jjva_           6 GLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEECSTTSCHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            367999999999988764

>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=82.59  E-value=0.17  Score=39.60  Aligned_cols=19  Identities=32%  Similarity=0.503  Sum_probs=16.6

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|.+++||||+++.|.
T Consensus         3 I~liG~~n~GKSSLin~l~   21 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLL   21 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            5688999999999988764

>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=82.56  E-value=0.24  Score=39.20  Aligned_cols=18  Identities=22%  Similarity=0.309  Sum_probs=15.5

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      +.++|++|+|||++++.+
T Consensus         6 i~lvG~~~vGKTsLi~r~   23 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQF   23 (167)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHH
Confidence            678899999999997754

>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=82.53  E-value=0.25  Score=39.77  Aligned_cols=20  Identities=40%  Similarity=0.330  Sum_probs=15.6

Q ss_pred             heeccccCCCchhhHHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLAD  204 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~  204 (367)
                      +.+.||||+|||++...++.
T Consensus        26 ~~i~G~~GsGKT~l~l~la~   45 (242)
T d1n0wa_          26 TEMFGEFRTGKTQICHTLAV   45 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            55679999999998665543

>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=82.53  E-value=0.24  Score=38.98  Aligned_cols=18  Identities=33%  Similarity=0.477  Sum_probs=15.6

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      ++++|++|+|||++++.+
T Consensus         5 v~liG~~~vGKTsLl~~~   22 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRF   22 (165)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHH
Confidence            678899999999997764

>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=82.51  E-value=0.22  Score=39.59  Aligned_cols=19  Identities=32%  Similarity=0.321  Sum_probs=16.3

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         8 i~lvG~~~vGKTsLi~r~~   26 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFI   26 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7889999999999987653

>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=82.37  E-value=0.24  Score=42.56  Aligned_cols=156  Identities=15%  Similarity=0.186  Sum_probs=80.7

Q ss_pred             hHHHHHhhhhhheeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCc----cccccceecc---ccc
Q psy4734         174 HLKKIFEVRHGLMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSIT----MGQLYGEFDS---ASH  246 (367)
Q Consensus       174 ~l~k~~~~~~~v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t----~~~l~G~~d~---~~~  246 (367)
                      .+.+.......|++.|++|+||+.+.+.+..    ....       .......++..+++    ..++||....   ...
T Consensus        15 ~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~----~s~~-------~~~~~~~~~~~~~~~~~~~~~lfg~~~~~~~~~~   83 (247)
T d1ny5a2          15 KIKKISCAECPVLITGESGVGKEVVARLIHK----LSDR-------SKEPFVALNVASIPRDIFEAELFGYEKGAFTGAV   83 (247)
T ss_dssp             HHHHHTTCCSCEEEECSTTSSHHHHHHHHHH----HSTT-------TTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCC
T ss_pred             HHHHHhCCCCCEEEECCCCcCHHHHHHHHHH----hcCC-------cccccccchhhhhhhcccHHHhcCcccCCcCCcc
Confidence            4555666778899999999999988776653    2211       11223345666554    3456775321   012


Q ss_pred             ccccchHHHHHHHHhcCCCCCceEEEEcC--CCChHhhhhhhhccCCCCceeecccceeecCCCCeEEEecCC-CC----
Q psy4734         247 EWRDGILAKTFREMAVSTTPDRKWIMFDG--PIDAVWIENMNTVLDDNKKLCLINGEIIKMSNTMNLIFECEN-LE----  319 (367)
Q Consensus       247 ~W~dGil~~~~r~~~~~~~~~~~wivfDG--~~d~~wie~lnsvlddn~~l~L~~ge~i~l~~~~~~ifE~~~-l~----  319 (367)
                      ....|++.++          ..-.++||.  .++..--+.|-.++++.....+.+...+  .-++|+||-++. +.    
T Consensus        84 ~~~~g~l~~a----------~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~--~~~~RlI~~s~~~l~~l~~  151 (247)
T d1ny5a2          84 SSKEGFFELA----------DGGTLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEI--EVNVRILAATNRNIKELVK  151 (247)
T ss_dssp             SCBCCHHHHT----------TTSEEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBE--ECCCEEEEEESSCHHHHHH
T ss_pred             cccCCHHHcc----------CCCEEEEeChHhCCHHHHHHHHHHHHhCCEEECCCCCce--ecCeEEEEecCCCHHHHHH
Confidence            2345554321          114678883  3344444455555555444444333323  346889987642 21    


Q ss_pred             --ccCcchhhceee--EEecccC-C--chHHHHHHHHHHh
Q psy4734         320 --FASPATVSRVGM--IYFELKC-I--SWTTFFLSYQNEL  352 (367)
Q Consensus       320 --~asPatvsRcg~--v~~~~~~-~--~~~~~~~swl~~~  352 (367)
                        ...+....|+..  |.+.|-. -  ....++..++...
T Consensus       152 ~~~f~~~L~~~l~~~~i~lPpLreR~~Di~~l~~~~l~~~  191 (247)
T d1ny5a2         152 EGKFREDLYYRLGVIEIEIPPLRERKEDIIPLANHFLKKF  191 (247)
T ss_dssp             TTSSCHHHHHHHTTEEEECCCGGGCHHHHHHHHHHHHHHH
T ss_pred             cCCCcHHHHhhcCeeeecCCChhhchhhHhhhhhhhhhhh
Confidence              234445555443  4444421 0  1445556665544

>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=82.29  E-value=0.24  Score=39.33  Aligned_cols=19  Identities=26%  Similarity=0.452  Sum_probs=15.8

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+|||++++.+.
T Consensus         5 i~~vG~~~vGKSsLi~~~~   23 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYV   23 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            5688999999999987643

>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=82.28  E-value=0.22  Score=39.59  Aligned_cols=19  Identities=32%  Similarity=0.454  Sum_probs=16.6

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      |.++|.+++||||+++.|.
T Consensus         8 I~iiG~~nvGKSSLin~L~   26 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLL   26 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6788999999999988764

>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=82.07  E-value=0.24  Score=39.30  Aligned_cols=18  Identities=22%  Similarity=0.257  Sum_probs=15.3

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      ++++|++|+|||++++.+
T Consensus         5 i~viG~~~vGKTsLi~r~   22 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRF   22 (171)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            578899999999997654

>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=82.05  E-value=0.21  Score=42.55  Aligned_cols=28  Identities=21%  Similarity=0.188  Sum_probs=21.0

Q ss_pred             HHHHHhhhhhheeccccCCCchhhHHHHH
Q psy4734         175 LKKIFEVRHGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       175 l~k~~~~~~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.+.+.. +..+|+|+||.||||+++.|.
T Consensus        89 L~~~l~~-kt~~~~G~SGVGKSTLiN~L~  116 (225)
T d1u0la2          89 LKEYLKG-KISTMAGLSGVGKSSLLNAIN  116 (225)
T ss_dssp             HHHHHSS-SEEEEECSTTSSHHHHHHHHS
T ss_pred             HHHHhcC-CeEEEECCCCCCHHHHHHhhc
Confidence            5555544 445788999999999988764

>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=81.91  E-value=0.36  Score=40.39  Aligned_cols=31  Identities=35%  Similarity=0.312  Sum_probs=21.1

Q ss_pred             hhHHHHHh----hhhhheeccccCCCchhhHHHHH
Q psy4734         173 PHLKKIFE----VRHGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       173 ~~l~k~~~----~~~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.|.+++.    ..+-+.+.||||+|||++.--++
T Consensus        23 ~~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~   57 (254)
T d1pzna2          23 KSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLA   57 (254)
T ss_dssp             HHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHH
T ss_pred             HHHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHH
Confidence            35777754    23446678999999999754433

>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=81.80  E-value=0.26  Score=39.27  Aligned_cols=19  Identities=16%  Similarity=0.371  Sum_probs=16.0

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++++|||++++.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~   27 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYV   27 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6789999999999986653

>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=81.70  E-value=0.25  Score=39.05  Aligned_cols=19  Identities=16%  Similarity=0.256  Sum_probs=16.1

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      |+++|++|+|||++++.+.
T Consensus         7 v~liG~~~vGKTsLl~~~~   25 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFV   25 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6788999999999987653

>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=81.63  E-value=0.25  Score=39.03  Aligned_cols=19  Identities=37%  Similarity=0.370  Sum_probs=16.1

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+|||++++.+.
T Consensus         6 i~viG~~~vGKTsli~~l~   24 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLI   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6788999999999987653

>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=81.59  E-value=0.25  Score=39.52  Aligned_cols=19  Identities=32%  Similarity=0.457  Sum_probs=16.6

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      |.++|.+|+||||+++.|.
T Consensus         8 I~lvG~~~~GKSSLin~l~   26 (178)
T d1wf3a1           8 VAIVGKPNVGKSTLLNNLL   26 (178)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7788999999999987764

>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=81.57  E-value=0.27  Score=39.01  Aligned_cols=19  Identities=32%  Similarity=0.471  Sum_probs=16.0

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         9 i~vvG~~~vGKTsLi~~l~   27 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFV   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6788999999999977653

>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=81.54  E-value=0.26  Score=42.63  Aligned_cols=15  Identities=27%  Similarity=0.313  Sum_probs=12.5

Q ss_pred             heeccccCCCchhhH
Q psy4734         185 LMVVGESFGGKTTAY  199 (367)
Q Consensus       185 v~~~g~~gsGKTt~~  199 (367)
                      +++.|+||||||+++
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            667799999999863

>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=81.53  E-value=0.27  Score=38.82  Aligned_cols=19  Identities=16%  Similarity=0.378  Sum_probs=15.9

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+|||++++.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~   25 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFT   25 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6788999999999977643

>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=81.52  E-value=0.19  Score=40.54  Aligned_cols=19  Identities=26%  Similarity=0.268  Sum_probs=16.1

Q ss_pred             hheeccccCCCchhhHHHH
Q psy4734         184 GLMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       184 ~v~~~g~~gsGKTt~~~~L  202 (367)
                      -|-++|+|++||||+++.|
T Consensus         3 ~VaiiG~~nvGKSSLin~L   21 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVV   21 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHS
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            4678999999999997765

>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=81.42  E-value=0.26  Score=39.37  Aligned_cols=19  Identities=32%  Similarity=0.321  Sum_probs=16.0

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      |+++|++|+|||++++.+.
T Consensus         9 v~lvG~~~vGKTsLi~r~~   27 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFI   27 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6789999999999977543

>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=81.26  E-value=0.23  Score=39.71  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=17.3

Q ss_pred             hhhheeccccCCCchhhHHHHH
Q psy4734         182 RHGLMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       182 ~~~v~~~g~~gsGKTt~~~~L~  203 (367)
                      |+-++++|++|+|||++++.+.
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~   23 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNS   23 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             cEEEEEECCCCcCHHHHHHHHH
Confidence            3447889999999999976543

>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=81.03  E-value=0.45  Score=40.09  Aligned_cols=46  Identities=22%  Similarity=0.392  Sum_probs=32.0

Q ss_pred             hHHHHHHHHhc--CCcccchhh-HHHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSET--KDPLRVQPH-LKKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~-l~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++++.+.+.  ..|..+|.. +..++. ..-++..+++|||||.++-+
T Consensus        25 ~~~l~~~L~~~g~~~pt~IQ~~aIp~il~-g~dvi~~a~TGSGKTlayll   73 (222)
T d2j0sa1          25 REDLLRGIYAYGFEKPSAIQQRAIKQIIK-GRDVIAQSQSGTGKTATFSI   73 (222)
T ss_dssp             CHHHHHHHHHHTCCSCCHHHHHHHHHHHT-TCCEEEECCTTSSHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHHC-CCCeEEEcCcchhhhhhhcc
Confidence            57788888654  456667765 344444 45578889999999988643

>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=81.02  E-value=0.19  Score=40.17  Aligned_cols=18  Identities=33%  Similarity=0.517  Sum_probs=15.7

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      ++++|++++|||++++.+
T Consensus        15 IvlvG~~~vGKTSli~rl   32 (173)
T d1e0sa_          15 ILMLGLDAAGKTTILYKL   32 (173)
T ss_dssp             EEEEEETTSSHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            778999999999997654

>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=81.02  E-value=0.29  Score=38.84  Aligned_cols=19  Identities=21%  Similarity=0.261  Sum_probs=15.7

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+|||++++.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~   23 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFL   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5688999999999977543

>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=80.99  E-value=0.36  Score=39.51  Aligned_cols=30  Identities=23%  Similarity=0.345  Sum_probs=20.3

Q ss_pred             cchhh-HHHHHhhhhhheeccccCCCchhhHH
Q psy4734         170 RVQPH-LKKIFEVRHGLMVVGESFGGKTTAYQ  200 (367)
Q Consensus       170 ~lq~~-l~k~~~~~~~v~~~g~~gsGKTt~~~  200 (367)
                      ..|.. +..+.. ...+++.+|+|+|||+++-
T Consensus        28 ~~Q~~ai~~l~~-~~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          28 PPQAEAVEKVFS-GKNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             CCCHHHHHHHTT-CSCEEEECSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCCEEEEcCCCCchhHHHH
Confidence            44544 444444 4457889999999998753

>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=80.88  E-value=0.19  Score=40.44  Aligned_cols=18  Identities=33%  Similarity=0.486  Sum_probs=15.2

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      ++++|++|+||||+++.+
T Consensus        20 I~lvG~~~vGKTsLi~~l   37 (182)
T d1moza_          20 ILILGLDGAGKTTILYRL   37 (182)
T ss_dssp             EEEEEETTSSHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            668899999999997653

>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=80.85  E-value=0.29  Score=39.34  Aligned_cols=19  Identities=26%  Similarity=0.447  Sum_probs=16.0

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      |+++|.+|+|||++++.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~   23 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYV   23 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            5688999999999987653

>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=80.59  E-value=0.48  Score=39.49  Aligned_cols=46  Identities=24%  Similarity=0.342  Sum_probs=31.5

Q ss_pred             hHHHHHHHHhc--CCcccchhhH-HHHHhhhhhheeccccCCCchhhHHH
Q psy4734         155 NDELLEILSET--KDPLRVQPHL-KKIFEVRHGLMVVGESFGGKTTAYQT  201 (367)
Q Consensus       155 ~~~Ll~ils~~--~~~~~lq~~l-~k~~~~~~~v~~~g~~gsGKTt~~~~  201 (367)
                      ++++++++.+-  ..+..+|... ..++.+ .-++..+|+|||||.++-+
T Consensus        18 ~~~l~~~L~~~g~~~pt~iQ~~aip~il~g-~dvl~~a~TGsGKT~a~~l   66 (212)
T d1qdea_          18 DENLLRGVFGYGFEEPSAIQQRAIMPIIEG-HDVLAQAQSGTGKTGTFSI   66 (212)
T ss_dssp             CHHHHHHHHHHTCCSCCHHHHHHHHHHHTT-CCEEEECCTTSSHHHHHHH
T ss_pred             CHHHHHHHHHCCCCCCCHHHHHHHHHHHcC-CCEEeecccccchhhhhHh
Confidence            57888888654  3455567653 334444 4588889999999988643

>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=80.54  E-value=0.29  Score=38.45  Aligned_cols=19  Identities=32%  Similarity=0.436  Sum_probs=16.0

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      +.++|++|+|||++++.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~   21 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFM   21 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            5788999999999987653

>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=80.43  E-value=0.52  Score=40.26  Aligned_cols=46  Identities=24%  Similarity=0.229  Sum_probs=33.3

Q ss_pred             heeccccCCCchhhHHHHHHHHHHHHhhhccccccceeEEEEeCCCCCccccccc
Q psy4734         185 LMVVGESFGGKTTAYQTLADSLTDIAAKKSATMKEFKTGYKIINPKSITMGQLYG  239 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~~al~~~~~~~~~~~~~~~v~~~~inpka~t~~~l~G  239 (367)
                      +-+.|..|+||||+.-.|+.++.+.         +.+|-....+|.+-+...++|
T Consensus         4 Iai~gKGGvGKTT~a~nLA~~LA~~---------G~rVllID~D~q~~~t~~ll~   49 (269)
T d1cp2a_           4 VAIYGKGGIGKSTTTQNLTSGLHAM---------GKTIMVVGCDPKADSTRLLLG   49 (269)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHTT---------TCCEEEEEECTTSCSSHHHHT
T ss_pred             EEEECCCcCCHHHHHHHHHHHHHhC---------CCcEEEEecCCCCCchhhhhC
Confidence            4457899999999999999998754         346777778886544444444

>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=80.35  E-value=0.29  Score=39.87  Aligned_cols=19  Identities=26%  Similarity=0.419  Sum_probs=16.3

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         9 ivvvG~~~vGKTsli~~l~   27 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFS   27 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHh
Confidence            6788999999999987653

>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=80.32  E-value=0.31  Score=39.16  Aligned_cols=19  Identities=32%  Similarity=0.384  Sum_probs=16.1

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus         8 ivviG~~~vGKTsli~~~~   26 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYT   26 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6788999999999987653

>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=80.28  E-value=0.59  Score=46.41  Aligned_cols=55  Identities=27%  Similarity=0.463  Sum_probs=38.5

Q ss_pred             hHHHHHHHHhcCCcccchhhHHHHHh----------hhhhheeccccCCCchhhHHHHHHHHHHHH
Q psy4734         155 NDELLEILSETKDPLRVQPHLKKIFE----------VRHGLMVVGESFGGKTTAYQTLADSLTDIA  210 (367)
Q Consensus       155 ~~~Ll~ils~~~~~~~lq~~l~k~~~----------~~~~v~~~g~~gsGKTt~~~~L~~al~~~~  210 (367)
                      +++..+... .+....+-||++.+-+          ...++++.|++|||||+..+.+...+..++
T Consensus        89 ~~~~~~~y~-~~~~~~~~PHifaiA~~Ay~~m~~~~~nQsIiisGeSGaGKTe~~k~il~yL~~~s  153 (712)
T d1d0xa2          89 TQEMVDIFK-GRRRNEVAPHIFAISDVAYRSMLDDRQNQSLLITGESGAGKTENTKKVIQYLASVA  153 (712)
T ss_dssp             SHHHHHHHT-TCCGGGSCCCHHHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHc-CCCcCCCCCcHHHHHHHHHHHHHHhCCCceEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            456666654 3444556788665422          234688889999999999999888877654

>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=80.26  E-value=0.24  Score=39.66  Aligned_cols=19  Identities=21%  Similarity=0.363  Sum_probs=16.2

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      |-|+|.+++||||+++.|.
T Consensus         4 VaivG~~nvGKSTLin~L~   22 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMT   22 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6788999999999987653

>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=80.11  E-value=0.28  Score=39.61  Aligned_cols=18  Identities=22%  Similarity=0.528  Sum_probs=16.0

Q ss_pred             heeccccCCCchhhHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTL  202 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L  202 (367)
                      ++++|++|+|||++++.+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            568899999999998877

>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=80.01  E-value=0.33  Score=38.82  Aligned_cols=19  Identities=26%  Similarity=0.494  Sum_probs=16.1

Q ss_pred             heeccccCCCchhhHHHHH
Q psy4734         185 LMVVGESFGGKTTAYQTLA  203 (367)
Q Consensus       185 v~~~g~~gsGKTt~~~~L~  203 (367)
                      ++++|++|+|||++++.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~   28 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFT   28 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6788999999999987654