Citrus Sinensis ID: 009534

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530--
Protein Sequence
MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEVPRLSRKINLGGFCSGNCVERYKDGKRVVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCGSREQESDSILSGGSLVLVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNNLQWDDQATQNAFLPYFKTNVFFPLCGE
Secondary Structure (PSIPRED)
cccEEEEcccHHHHHHHHHHHHHHHHcHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHcccccEEEEEEEcccccHHHHHHHHHHHcccccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHcccEEEccHHHHHHHHHHHcccccccccccccccccHHHHHHHccccEEEEcccccHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHcccEEEEEccccccEEEEEcccccccccccccccccccEEEEEcccccccccccccccccEEEEEccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccEEEEEcccccccccccccccccccEEEEccHHHHHHcccccHHHHcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHcccccEEcccccccccccccccccEccHHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHHHHHcccccccEEEEEEEEccccHHHHHHHHHHHcccccHHcccccHHHHHHHHHHHHHHccEEEEEccHHHHccHHHccccccccEEEEEcccHHHHHHHcccccEEEEEccHHHHHHHHHHHccHHHHHccHHHHHHHHHHcccccHHHHHHHHHHHcccccEEHcHHHHcHcEEccccccccccccccccccccEEEEEcccHHHHEHEEEccccEEEEEcccHHHHHHHccccccccccccccccccHHHHEEEEHcccHHHHHHHccccccccccEEEEEccccccccccccccccccEEEEEccHHHHHHcccccHHHHHHHccccccEEEEEcccc
Coil and Loop (DISEMBL)
mgnvcsaqfscdgtisRCLDCIVskagyichlKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKevprlsrkinlggfcsgncverykdGKRVVELLKNVQSLrkegdfkdvaqtvpenpvderplpptvvglQSTLDRVWRclteepvgivglygmggvgkTTLLTQINNsflhtpnnfDFVIWEVVSRDLQLGKIQESIAKKIGLcneswdsksfDEKAQEIFKTMRNTKFLISNLKMLEALRMFkcgsreqesdsilsgGSLVLVEELLGLKHLNVLTITLHSFAALQRLltypslqsivsntpslsltncrslsslSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILapnlkliqmYDCRCLEEIISleklgevpseemqnlipfaRLERlslgglenlrsiypralpfphlkelhvtlcpklkklpfdctsgheRKLIIKGQEEWWNNlqwddqatqnaflpyfktnvffplcge
Flexible Loop (DISEMBL)
mgnvcsaqfscdgTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQqvqgwlsrvqdvekevprlsrkinlggfcsgncverykdgkRVVELLKNVqslrkegdfkdvaqtvpenpvderplpptvVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCGSREQESDSILSGGSLVLVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLeklgevpseEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNNLQWDDQATQNAFLPYFKTNVFFPLCGE
Low Complexity Region (SEG)
MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEVPRLSRKINLGGFCSGNCVERYKDGKRVVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPvgivglygmggvgKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCGSREQESDSIlsggslvlveellglKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRslsslsvltlaslRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNNLQWDDQATQNAFLPYFKTNVFFPLCGE
Disordered region (IsUnstruct)
****CSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEVPRLSRKINLGGFCSGNCVERYKDGKRVVELLKNVQSL*************************TVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCGS******SILSGGSLVLVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNNLQWDDQATQNAFLPYFKTNVFFPLC**
Disordered Region (DISOPRED)
*GNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEVPRLSRKINLGGFCSGNCVERYKDGKRVVELLKNVQSLRK****************************QSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCGSREQESDSILSGGSLVLVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISL***************PFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKL*************IKGQEEWWNNLQWDDQATQNAFLPYFKTNVFFPLCG*
Disordered Region (DISEMBL)
********FSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEVPRLSRKINLGGFCSGNCVERYKDGKRVVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCG*********LSGGSLVLVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNNLQWDDQATQNAFLPYFKTNVFFPLCGE
Disordered Region (DISPRO)
*GNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEVPRLSRKINLGGFCSGNCVERYKDGKRVVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCGSREQESDSILSGGSLVLVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKL********QNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNNLQWDDQATQNAFLPYFKTNVFFPLCGE
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEVPRLSRKINLGGFCSGNCVERYKDGKRVVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCGSREQESDSILSGGSLVLVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNNLQWDDQATQNAFLPYFKTNVFFPLCGE
Positional Conservation
no confident homologs detected

---

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	532	2.2.26 [Sep-21-2011]
P60838	894	Probable disease resistan	yes	no	0.477	0.284	0.412	8e-50
Q8L3R3	885	Disease resistance protei	no	no	0.477	0.287	0.427	8e-50
O82484	892	Putative disease resistan	no	no	0.473	0.282	0.406	1e-48
O22727	967	Probable disease resistan	no	no	0.473	0.260	0.406	4e-48
Q8RXS5	888	Probable disease resistan	no	no	0.475	0.284	0.390	6e-48
Q940K0	889	Probable disease resistan	no	no	0.471	0.282	0.406	2e-47
O64789	925	Probable disease resistan	no	no	0.473	0.272	0.396	6e-47
Q9LMP6	851	Probable disease resistan	no	no	0.473	0.296	0.402	3e-45
P60839	884	Probable disease resistan	no	no	0.477	0.287	0.394	6e-45
O64973	889	Disease resistance protei	no	no	0.475	0.284	0.395	4e-43

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  198 bits (504), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 108/262 (41%), Positives = 156/262 (59%), Gaps = 8/262 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MG   +  FSCD  +++    +    GYIC L  N+ A++ D + L + R+DV+ RV + 
Sbjct: 1   MGACLTLSFSCDEVVNQISQGLCINVGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIE 60

Query: 61  E-QRQMRRLQQVQGWLSRVQDVEKEVPRLS-------RKINLGGFCSGNCVERYKDGKRV 112
           E  R+  RL QVQGWL+ V  VE +   L        +++ L GFCS N    Y  GKRV
Sbjct: 61  EFTRRRERLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRV 120

Query: 113 VELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVG 172
           V +LK ++SL  +GDF  V    P   ++E P+ PT+VG ++ L+RVW  LTE+   IVG
Sbjct: 121 VLMLKEIESLSSQGDFDTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLTEDGDEIVG 180

Query: 173 LYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWD 232
           LYGMGGVGKTTLLT+INN F    + F  VIW VVS+   + +IQ  I K++ L  E WD
Sbjct: 181 LYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWD 240

Query: 233 SKSFDEKAQEIFKTMRNTKFLI 254
           + + +++A +I+  +   KF++
Sbjct: 241 NVNENQRALDIYNVLGKQKFVL 262

Probable disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  198 bits (504), Expect = 8e-50,   Method: Compositional matrix adjust.
 Identities = 112/262 (42%), Positives = 152/262 (58%), Gaps = 8/262 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MG   S   SCD  +++    +     YI +L +NL +L+     L   R+DVQ R+   
Sbjct: 1   MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINRE 60

Query: 61  E-QRQMRRLQQVQGWLSRVQDVEKEVPRLSRKIN-------LGGFCSGNCVERYKDGKRV 112
           E     RRL QVQ WL+R+Q +E +   L    N       L GFCS N    Y  GKRV
Sbjct: 61  EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query: 113 VELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVG 172
           + LL+ V+ L  +G F  V +  P   V+E P+  T+VG  S LD+VW CL E+ V IVG
Sbjct: 121 IVLLREVEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVG 180

Query: 173 LYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWD 232
           LYGMGGVGKTTLLTQINN F      FD VIW VVS++  + KIQ+SI +K+GL  ++WD
Sbjct: 181 LYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWD 240

Query: 233 SKSFDEKAQEIFKTMRNTKFLI 254
            K+ +++A +I   +R  KF++
Sbjct: 241 EKNKNQRALDIHNVLRRKKFVL 262

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score =  194 bits (494), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 106/261 (40%), Positives = 150/261 (57%), Gaps = 9/261 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MG+  S Q SCD  ++R   C  S   YI  LKDN+ AL    + L   R+DV  RV + 
Sbjct: 1   MGSCISLQISCDQVLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQME 60

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRL--SRKINLGGFC-----SGNCVERYKDGKRVV 113
           E + + RLQQVQ WL RV+ +  +   L  +R I +   C     S N    Y  G+RV 
Sbjct: 61  EGKGLERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVF 120

Query: 114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGL 173
            ++K V++L   G F+ VA   P+  ++ RP+ PT++G ++   R W  L ++ VG +GL
Sbjct: 121 LMIKEVENLNSNGFFEIVAAPAPK--LEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGL 178

Query: 174 YGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
           YGMGGVGKTTLLTQI+N+   T N  D VIW VVS DLQ+ KIQE I +K+G   + W+ 
Sbjct: 179 YGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNK 238

Query: 234 KSFDEKAQEIFKTMRNTKFLI 254
           K   +KA +I   +   +F++
Sbjct: 239 KQESQKAVDILNCLSKKRFVL 259

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  192 bits (489), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 106/261 (40%), Positives = 157/261 (60%), Gaps = 9/261 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MGN    + S D  + R + C+  K GYI +L+ NL AL+ + + L   +++VQ +V   
Sbjct: 1   MGNFVCIEISGDQMLDRIIRCLCGK-GYIRNLEKNLRALQREMEDLRATQHEVQNKVARE 59

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEV-------PRLSRKINLGGFCSGNCVERYKDGKRVV 113
           E R  +RL+ VQ WL RV  ++ E        P   +K+ L G CS      YK GKRV 
Sbjct: 60  ESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVF 119

Query: 114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGL 173
            LL+ V  L+ EG+F +V+Q  P + V+ERP  PT+ G +  L + W  L E+ VGI+GL
Sbjct: 120 LLLEEVTKLKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMEDGVGIMGL 178

Query: 174 YGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
           +GMGGVGKTTL  +I+N F  T   FD VIW VVS+  +L K+QE IA+K+ LC++ W +
Sbjct: 179 HGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKN 238

Query: 234 KSFDEKAQEIFKTMRNTKFLI 254
           K+  +KA +I + ++  +F++
Sbjct: 239 KNESDKATDIHRVLKGKRFVL 259

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score =  192 bits (488), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 102/261 (39%), Positives = 156/261 (59%), Gaps = 8/261 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MG   S   SCD        C+     YI  L++NL AL+   +++ + R D+  +++  
Sbjct: 1   MGGCVSVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSE 60

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRLSR-------KINLGGFCSGNCVERYKDGKRVV 113
           E+R ++RL  VQGW+S+V+ +   V  L R       ++ L GFCS N V  Y+ GKRV+
Sbjct: 61  ERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVM 120

Query: 114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGL 173
           ++++ V+ LR +GDF  VA+ V    V+ERP  P +V +   L+  W  L E+ +GI+GL
Sbjct: 121 KMIEEVEVLRYQGDFAVVAERVDAARVEERPTRP-MVAMDPMLESAWNRLMEDEIGILGL 179

Query: 174 YGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
           +GMGGVGKTTLL+ INN F      FD VIW VVS++LQ+ +IQ+ I +K+   NE W  
Sbjct: 180 HGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQ 239

Query: 234 KSFDEKAQEIFKTMRNTKFLI 254
           K+ D KA  I+  +++ +F++
Sbjct: 240 KTEDIKASNIYNVLKHKRFVL 260

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score =  191 bits (484), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 106/261 (40%), Positives = 160/261 (61%), Gaps = 10/261 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MG+  S Q S D T++R  +C++ K+ YI  L+ NL AL+ + + L   +++VQ +V   
Sbjct: 1   MGSCFSLQVS-DQTLNRIFNCLIGKS-YIRTLEKNLRALQREMEDLRAIQHEVQNKVARD 58

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKE-------VPRLSRKINLGGFCSGNCVERYKDGKRVV 113
           E R  RRL+ VQ WL RV  V+ E        P   +K+ L G CS      YK GK+V 
Sbjct: 59  EARHQRRLEAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVF 118

Query: 114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGL 173
            LL+ V+ L  EG+F +V+Q  P + V+ERP  PT+ G +  L++ W  L E+ VGI+GL
Sbjct: 119 LLLEEVKKLNSEGNFDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMEDGVGIMGL 177

Query: 174 YGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
           +GMGGVGKTTL  +I+N F      FD VIW VVS+ + + K+QE IA+K+ LC++ W +
Sbjct: 178 HGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKN 237

Query: 234 KSFDEKAQEIFKTMRNTKFLI 254
           K+  +KA +I + ++  +F++
Sbjct: 238 KNESDKATDIHRVLKGKRFVL 258

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  189 bits (479), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 104/262 (39%), Positives = 161/262 (61%), Gaps = 10/262 (3%)

Query: 1   MGNVCSAQFSC-DGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIV 59
           MG+  S Q +  D T++R  DC++ K+ YI  L+ NL AL+ + + L   +++VQ +V  
Sbjct: 1   MGSCFSFQIAVGDQTMNRIFDCLIGKS-YIRTLEKNLRALQREMEDLRATQHEVQNKVAR 59

Query: 60  AEQRQMRRLQQVQGWLSRVQDVEKEV-------PRLSRKINLGGFCSGNCVERYKDGKRV 112
            E R  +RL+ VQ WL RV  ++ E        P   +K+ L G C+      YK GK+V
Sbjct: 60  EESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKV 119

Query: 113 VELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVG 172
             LL+ V+ L+ EG+F +V+Q  P + V+ERP  PT+ G +  L++ W  L E+ VGI+G
Sbjct: 120 FLLLEEVKILKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLEKAWNRLMEDGVGIMG 178

Query: 173 LYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWD 232
           L+GMGGVGKTTL  +I+N F      FD VIW VVS+  +L K+QE IA+K+ LC++ W 
Sbjct: 179 LHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWK 238

Query: 233 SKSFDEKAQEIFKTMRNTKFLI 254
           +K+  +KA +I + ++  +F++
Sbjct: 239 NKNESDKATDIHRVLKGKRFVL 260

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LMP6|DRL3_ARATH Probable disease resistance protein At1g15890 OS=Arabidopsis thaliana GN=At1g15890 PE=3 SV=2

 Score =  183 bits (465), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 105/261 (40%), Positives = 153/261 (58%), Gaps = 9/261 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MGN  + + SCD T++    C+     YI  ++ NL AL+   Q+L E R+D+  RV++ 
Sbjct: 1   MGNCVALEISCDQTLNHACGCLFGDRNYILKMEANLEALQNTMQELEERRDDLLRRVVIE 60

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRL-------SRKINLGGFCSGNCVERYKDGKRVV 113
           E + ++RL QVQGWLSRV+DV  +V  L       + ++ L G+CS N +     G  V+
Sbjct: 61  EDKGLQRLAQVQGWLSRVKDVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVL 120

Query: 114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGL 173
           + LK+V+ L  +G F+ VA+ +P   V+++ +  T VGL + + R W  L ++    +GL
Sbjct: 121 KKLKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQ-TTVGLDAMVGRAWNSLMKDERRTLGL 179

Query: 174 YGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
           YGMGGVGKTTLL  INN FL   N FD VIW VVS+DLQ   IQE I  ++GL +  W  
Sbjct: 180 YGMGGVGKTTLLASINNKFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGL-HRGWKQ 238

Query: 234 KSFDEKAQEIFKTMRNTKFLI 254
            +  EKA  I   +   KF++
Sbjct: 239 VTEKEKASYICNILNVKKFVL 259

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60839|DRL2_ARATH Probable disease resistance protein At1g12290 OS=Arabidopsis thaliana GN=At1g12290 PE=2 SV=1

 Score =  182 bits (462), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 103/261 (39%), Positives = 151/261 (57%), Gaps = 7/261 (2%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MG   S Q SCD  ++    C   K  YI ++K+NL +L    + L   R+D+  +V  A
Sbjct: 1   MGGCVSVQVSCDQLLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTA 60

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRL--SRKINLGGFC-----SGNCVERYKDGKRVV 113
           E+  ++RL Q++ WL RV+ +E +   L  SR + L   C     S N    Y  G+RV 
Sbjct: 61  EEGGLQRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVF 120

Query: 114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGL 173
            +L  V+ L+ +G F++VA        +ERPL PT+VG ++ L++ W  L ++   I+GL
Sbjct: 121 LMLNIVEDLKSKGIFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGL 180

Query: 174 YGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
           YGMGGVGKTTLLTQINN F  T +  + VIW VVS DLQ+ KIQ+ I +KIG     W+ 
Sbjct: 181 YGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQ 240

Query: 234 KSFDEKAQEIFKTMRNTKFLI 254
           KS ++KA +I   +   +F++
Sbjct: 241 KSENQKAVDILNFLSKKRFVL 261

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  176 bits (446), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 104/263 (39%), Positives = 149/263 (56%), Gaps = 10/263 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MG   S    CD  +S+    +  +  YI +L  NL +L+    ++++AR    IR +  
Sbjct: 1   MGGCFSVSLPCDQVVSQFSQLLCVRGSYIHNLSKNLASLQKAM-RMLKARQYDVIRRLET 59

Query: 61  EQRQMR--RLQQVQGWLSRVQDVEKEVPRLSR-------KINLGGFCSGNCVERYKDGKR 111
           E+   R  RL QVQ WL+ V  ++ +   L R       ++ L GFCS +    Y+ GKR
Sbjct: 60  EEFTGRQQRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKR 119

Query: 112 VVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIV 171
           V+ +LK V+SL  +G F  V++  P   VDE P  PT+VG +  L++ W  L E+  GI+
Sbjct: 120 VIMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGIL 179

Query: 172 GLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESW 231
           GLYGMGGVGKTTLLT+INN F    + FD VIW VVSR   + KIQ  IA+K+GL    W
Sbjct: 180 GLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEW 239

Query: 232 DSKSFDEKAQEIFKTMRNTKFLI 254
             K+ ++ A +I   +R  KF++
Sbjct: 240 SEKNDNQIAVDIHNVLRRRKFVL 262

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

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	532
24461861	890	NBS-LRR type disease resistance protein	0.477	0.285	0.561	2e-76
24461866	890	NBS-LRR type disease resistance protein	0.477	0.285	0.517	7e-70
359482676	896	PREDICTED: probable disease resistance p	0.599	0.356	0.438	1e-66
24461864	899	NBS-LRR type disease resistance protein	0.475	0.281	0.515	7e-65
225470150	897	PREDICTED: probable disease resistance p	0.501	0.297	0.474	2e-60
24461865	892	NBS-LRR type disease resistance protein	0.456	0.272	0.507	7e-60
24461863	889	NBS-LRR type disease resistance protein	0.456	0.273	0.492	1e-59
225462595	897	PREDICTED: probable disease resistance p	0.503	0.298	0.469	5e-59
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.475	0.287	0.480	7e-59
359483035	897	PREDICTED: probable disease resistance p	0.501	0.297	0.467	9e-59

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  292 bits (748), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 147/262 (56%), Positives = 184/262 (70%), Gaps = 8/262 (3%)

Query: 1   MGNVCSAQFSCDGTI-SRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIV 59
           MGN+C    SCDG   +RCLDC + KA YI +L+DNL AL T+ +KLI A+ND+  RV  
Sbjct: 1   MGNICQISISCDGAFFNRCLDCFLGKAAYISNLQDNLVALDTELRKLIAAKNDLMRRVND 60

Query: 60  AEQRQMRRLQQVQGWLSRVQDVEKEVPRLS-------RKINLGGFCSGNCVERYKDGKRV 112
           AE++QMRRL QVQ W+SRV+ VE E             K+ LGG+CS NC   YK GK+V
Sbjct: 61  AERQQMRRLDQVQVWVSRVETVETEADAFIGDGTQEIEKLCLGGYCSKNCKSSYKFGKQV 120

Query: 113 VELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVG 172
              L+++++L  EG F+ VA  VPE  VDERP  PTVVGLQS L+ VWRCL EEPVGIVG
Sbjct: 121 ARKLRDIKTLMGEGVFEVVADKVPEPAVDERPTEPTVVGLQSQLEEVWRCLVEEPVGIVG 180

Query: 173 LYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWD 232
           LYGMGGVGKTTLLT INN FL +P NFD VI  VVS+DL+L  IQE I +KIGL N++W 
Sbjct: 181 LYGMGGVGKTTLLTHINNKFLGSPTNFDLVILVVVSKDLRLESIQEVIGEKIGLLNDAWK 240

Query: 233 SKSFDEKAQEIFKTMRNTKFLI 254
           S+  ++KA +IF+ +R   F++
Sbjct: 241 SRRIEQKALDIFRILRGKNFVV 262

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461866|gb|AAN62353.1|AF506028_20 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  271 bits (693), Expect = 7e-70,   Method: Compositional matrix adjust.
 Identities = 135/261 (51%), Positives = 182/261 (69%), Gaps = 7/261 (2%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MGNV   Q        RCLD I+++A YI  L+DNL  L+T  ++LIEA++DV  RV +A
Sbjct: 1   MGNVFGVQIPWSNIFPRCLDWILNEAKYISQLEDNLDDLQTKLEQLIEAKDDVMNRVEIA 60

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRLSR-------KINLGGFCSGNCVERYKDGKRVV 113
           E++QM RL QVQGW+SRV+ V+ E  +L R       ++ L G+CS NC   Y  GK+V 
Sbjct: 61  ERQQMSRLNQVQGWVSRVEAVKAEADQLIRVGSQEIERLCLWGYCSKNCKSSYDFGKKVT 120

Query: 114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVGL 173
           + L+ V++L  EG F+ VA+ VP     ERP  PTV+GLQS L++VWRCL EEP GIVGL
Sbjct: 121 KKLQLVETLMGEGIFEVVAEKVPGAAATERPTEPTVIGLQSQLEQVWRCLVEEPAGIVGL 180

Query: 174 YGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
           YGMGGVGKTTLLT INN FL +  NF++VIW VVS+DL+L  IQE+I +KIGL N++W +
Sbjct: 181 YGMGGVGKTTLLTHINNKFLESTTNFNYVIWVVVSKDLRLENIQETIGEKIGLLNDTWKN 240

Query: 234 KSFDEKAQEIFKTMRNTKFLI 254
           +  ++KA +IFK ++  KF++
Sbjct: 241 RRIEQKALDIFKILKEKKFVL 261

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482676|ref|XP_002281742.2| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  260 bits (665), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 146/333 (43%), Positives = 205/333 (61%), Gaps = 14/333 (4%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MGNVCS   S +    RC DC  ++A YIC L++N   LRT+ QKL E RNDV+ +V VA
Sbjct: 1   MGNVCSVSISTEDIAGRCCDCTAARANYICKLQENRVTLRTELQKLRELRNDVKRKVDVA 60

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRL----SRKINLGGFCSG----NCVERYKDGKRV 112
           E++QM+RL QVQGWLSRV+D+E EV +L    +  I    FC      +C+  Y  GK+V
Sbjct: 61  ERQQMKRLDQVQGWLSRVEDMETEVTQLIGDGAENIEEKRFCGSCYPKHCISSYTLGKKV 120

Query: 113 VELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIVG 172
           V  L+ V +L  +G F+ VA  VP   V+E P   T VGL+ST DRVWRCL EE VG++G
Sbjct: 121 VRKLQQVAALMSDGRFEVVADIVPPAAVEEIP-SGTTVGLESTFDRVWRCLGEEHVGMIG 179

Query: 173 LYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWD 232
           LYG+GGVGKTTLLTQINN FL T +NFD VIW VVS+   L ++Q  I +K+G C++ W 
Sbjct: 180 LYGLGGVGKTTLLTQINNHFLKTSHNFDVVIWVVVSKTPNLDEVQNEIWEKVGFCDDKWK 239

Query: 233 SKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCG----SREQESDSILSGGSLVLVE 288
           SKS   KA++I+K +   +F++    + E + + + G     ++ +S  I +  SL L  
Sbjct: 240 SKSRHLKAKDIWKALNEKRFVMLLDDLWEQMNLLEVGIPPPHQQNKSKLIFTTRSLDLCG 299

Query: 289 ELLGLKHLNVLTITLH-SFAALQRLLTYPSLQS 320
           ++   K + V ++    S+   Q+ +   +L S
Sbjct: 300 QMGAQKKIEVKSLAWKDSWDLFQKYVGEDTLNS 332

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461864|gb|AAN62351.1|AF506028_18 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  254 bits (649), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 136/264 (51%), Positives = 178/264 (67%), Gaps = 11/264 (4%)

Query: 1   MGNVCSAQFSCDGT-ISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIV 59
           MGN+     SCDGT  +RCLDC + KA Y+ +L+ N+ AL+ +  KLI  ++DV  RV+ 
Sbjct: 1   MGNILQISISCDGTCFNRCLDCFLGKAAYVRNLQKNVEALKNELPKLIAKKDDVMARVVN 60

Query: 60  AEQRQM-RRLQQVQGWLSRVQDVEKEVPRLSR-------KINLGGFCSGNCVERYKDGKR 111
           AE++QM  RL +VQ WLSRV  V      L R       K+ LGG+CS NC    K GK+
Sbjct: 61  AERQQMMTRLNEVQLWLSRVDAVTAGADELIRIGSQEIEKLCLGGYCSKNCKSSKKFGKQ 120

Query: 112 VVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIV 171
           V + L +V+ L  EG F  VAQ  PE+  DERP+ P V G+QS L++VWRCL EEPVGIV
Sbjct: 121 VDKKLSDVKILLAEGSFAVVAQRAPESVADERPIEPAV-GIQSQLEQVWRCLVEEPVGIV 179

Query: 172 GLYGMGGVGKTTLLTQINNSFLHTPN-NFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES 230
           GLYGMGGVGKTTLLT +NN FL   + +FDF+IW VVS+DLQ+ KIQE I KK+GL N+S
Sbjct: 180 GLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGLFNDS 239

Query: 231 WDSKSFDEKAQEIFKTMRNTKFLI 254
           W  K+  E+A +I+  ++  KF++
Sbjct: 240 WMKKNLAERAVDIYNVLKEKKFVL 263

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225470150|ref|XP_002267120.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  239 bits (611), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 132/278 (47%), Positives = 179/278 (64%), Gaps = 11/278 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MGNV S   S +  I+ C DC  ++A YIC L +N   LRT+ QKL E +NDV  +V VA
Sbjct: 1   MGNVFSVSISTN-DIAGCCDCTAARANYICKLAENRVTLRTELQKLRELKNDVNRKVDVA 59

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRL-------SRKINLGGFC-SGNCVERYKDGKRV 112
           E++QM+RL QVQGWLSRV+ +E EV +L         +  L G C   +C+  Y  GK+V
Sbjct: 60  ERQQMKRLDQVQGWLSRVEAMETEVGQLIGDGAETVEEKRLRGCCHPKHCISSYTLGKKV 119

Query: 113 VELLKNVQSLRKEG-DFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIV 171
              L+++ +L  EG +F+ VA  VP  PV+E P   TV GL+ST D+VWR L EE VG++
Sbjct: 120 ARKLQDMATLMSEGRNFEVVADIVPPAPVEEIPGRSTV-GLESTFDKVWRSLEEEHVGMI 178

Query: 172 GLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESW 231
           G YG+GGVGKTTLLTQINN FL T +NFD VIW VVSR   LG++Q  I +K+G C++ W
Sbjct: 179 GFYGLGGVGKTTLLTQINNHFLKTSHNFDVVIWVVVSRTPNLGRVQNEIWEKVGFCDDKW 238

Query: 232 DSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCG 269
            SKS  EKA+ I++ +   +F++    M E + + + G
Sbjct: 239 KSKSRHEKAKVIWRALSKKRFVMLLDDMWEHMDLLEVG 276

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461865|gb|AAN62352.1|AF506028_19 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  238 bits (606), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 129/254 (50%), Positives = 175/254 (68%), Gaps = 11/254 (4%)

Query: 1   MGNVCSAQFSCDGTI-SRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIV 59
           MGN+   Q +CDG + +RCLDC + KA YI +LK NL  L T+  KLI+A+ DV  RV  
Sbjct: 1   MGNI--FQITCDGALFNRCLDCFLGKAAYIKNLKQNLADLETELGKLIDAKEDVMRRVNT 58

Query: 60  AEQR-QMRRLQQVQGWLSRVQDVEKEVPRLS-------RKINLGGFCSGNCVERYKDGKR 111
           AE+   M+RL +VQGWLSRV+  + +  +L        +K+ LGG+CS NC   Y+ GK+
Sbjct: 59  AERHPMMKRLNKVQGWLSRVEAAKSDGDKLITCGSQEIKKLCLGGYCSKNCKSSYEFGKQ 118

Query: 112 VVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIV 171
           V   L +V++L  E  F+ VA+ VP+  VDERP  PTVVGLQS  ++V  CL EE   IV
Sbjct: 119 VARKLGDVKTLMAEEAFEAVAEEVPQPAVDERPTEPTVVGLQSQFEQVCNCLEEESARIV 178

Query: 172 GLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESW 231
           GLYGMGGVGKTTLLT I+N F+ +P NF++VIW V S+DL+L  IQE+I ++IGL N++W
Sbjct: 179 GLYGMGGVGKTTLLTHIHNKFIQSPTNFNYVIWVVASKDLRLENIQETIGEQIGLLNDTW 238

Query: 232 DSKSFDEKAQEIFK 245
            +K  ++KAQ+IF+
Sbjct: 239 KNKRIEQKAQDIFR 252

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461863|gb|AAN62350.1|AF506028_17 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  237 bits (605), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 130/264 (49%), Positives = 173/264 (65%), Gaps = 21/264 (7%)

Query: 1   MGNVCSAQFSCDGTI-SRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIV 59
           MGN+   Q + DG + +RC+DC + KA YI +L++N+ AL T+  KLIEA+NDV  RV+ 
Sbjct: 1   MGNIL--QIAIDGAVFNRCMDCFLGKAAYIRNLQENVVALETELGKLIEAKNDVMARVVN 58

Query: 60  AE-QRQMRRLQQVQGWLSRVQDVEKEVPRLSR-------KINLGGFCSGNCVERYKDGKR 111
            E Q  M RL +VQGWLS V  V+ E   L R       K+ LGG+CS N    YK GK+
Sbjct: 59  TERQPMMTRLNKVQGWLSGVDAVKAEADELIRHGSQEIEKLCLGGYCSKNWKSSYKFGKQ 118

Query: 112 VVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIV 171
           V + L++  +L  EG F+ VA+  PE+           VG+QS L+ VWRCL EEPVGIV
Sbjct: 119 VAKKLRDAGTLMAEGVFEVVAERAPES---------AAVGMQSRLEPVWRCLVEEPVGIV 169

Query: 172 GLYGMGGVGKTTLLTQINNSFLHTPN-NFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES 230
           GLYGMGGVGKTTLLT +NN FL   + +FDF+IW VVS+DLQ+ KIQE I KK+G  N+S
Sbjct: 170 GLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGFFNDS 229

Query: 231 WDSKSFDEKAQEIFKTMRNTKFLI 254
           W  K+  E+A +I+  ++  KF++
Sbjct: 230 WMKKNLAERAVDIYNVLKEKKFVL 253

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225462595|ref|XP_002270572.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  235 bits (599), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 131/279 (46%), Positives = 177/279 (63%), Gaps = 11/279 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MGNV S   S +  I+ C DC V++A YI  L +N   LRT+ QKL E +NDV  +V VA
Sbjct: 1   MGNVFSVSISTN-DIAGCCDCTVARANYIFKLAENRVTLRTELQKLRELKNDVNRKVDVA 59

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRLS-------RKINLGGFC-SGNCVERYKDGKRV 112
           E++QM+RL QVQGWLSRV+ +E EV +L         +  L G C   +C+  Y  GK+V
Sbjct: 60  ERQQMKRLDQVQGWLSRVEAMETEVGQLIGDGAETIEEKRLRGCCHPKHCISSYTLGKKV 119

Query: 113 VELLKNVQSLRKEG-DFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIV 171
              L++  +L  EG +F+ VA  VP  PV+E P  PTV GL+ST D+VWR L EE VG++
Sbjct: 120 ARKLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPTV-GLESTFDKVWRSLEEEHVGMI 178

Query: 172 GLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESW 231
           GLYG+GGVGKTTLL QINN FL T +NFD VIW VVS+   L ++Q  I +K+G C++ W
Sbjct: 179 GLYGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDDKW 238

Query: 232 DSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCGS 270
            SKS  EKA  I++ +   +F +    M E + + + G+
Sbjct: 239 KSKSRHEKANNIWRALSKKRFAMLLDDMWEQMDLLEVGN 277

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055915|ref|XP_002298700.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222845958|gb|EEE83505.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  234 bits (597), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 126/262 (48%), Positives = 168/262 (64%), Gaps = 9/262 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MGN CS   SCD  +S CLD    KA YI  LK+N+  L+   ++L +  NDV  RV V 
Sbjct: 1   MGNFCSISISCDKLLSGCLDFTFRKAVYISKLKENVDGLKIAVEELTDLHNDVTRRVKVD 60

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRLSR-------KINLGGFCSGNCVERYKDGKRVV 113
           E++Q+++L QVQ W+SR +    +   L R       ++ L G+CS N    Y+  K V 
Sbjct: 61  EEQQLKQLDQVQRWISRAKAAIDKANELLREDSQEIERLCLRGYCSKNYKSSYRFAKEVD 120

Query: 114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEP-VGIVG 172
           + L++V  L+  GDFK VA+ VP      RP  PTV GL+ST ++VW CL EE  VGIVG
Sbjct: 121 KRLRDVADLKANGDFKVVAEKVPAASGVPRPSEPTV-GLESTFNQVWTCLREEKQVGIVG 179

Query: 173 LYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWD 232
           LYGMGGVGKTTLLTQINN  L TP++FD VIW VVS+DL+L  +QESI + IG  ++ W 
Sbjct: 180 LYGMGGVGKTTLLTQINNESLKTPDDFDIVIWVVVSKDLKLNTVQESIGRNIGCSDDLWK 239

Query: 233 SKSFDEKAQEIFKTMRNTKFLI 254
           +KS DEKA +IF  +R+ +F++
Sbjct: 240 NKSLDEKAVDIFNALRHKRFVM 261

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359483035|ref|XP_003632886.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  234 bits (597), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 130/278 (46%), Positives = 178/278 (64%), Gaps = 11/278 (3%)

Query: 1   MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
           MGNV S   S +  I+ C DC V++A YI  L +N   LRT+ QKL E +NDV  +V VA
Sbjct: 1   MGNVFSVSISTN-DIAGCCDCTVARANYIFKLAENRVTLRTELQKLRELKNDVNRKVDVA 59

Query: 61  EQRQMRRLQQVQGWLSRVQDVEKEVPRLS-------RKINLGGFC-SGNCVERYKDGKRV 112
           E++QM+RL QVQGWLS+V+ +E EV +L         +  L G C   +C+  Y  GK+V
Sbjct: 60  ERQQMKRLDQVQGWLSKVEAMETEVGQLIGDGAETIEEKRLRGCCHPKHCISSYTLGKKV 119

Query: 113 VELLKNVQSLRKEG-DFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPVGIV 171
              L++  +L  EG +F+ VA  VP  PV+E P  PTV GL+ST D+VWR L EE VG++
Sbjct: 120 ARKLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPTV-GLESTFDKVWRSLEEEHVGMI 178

Query: 172 GLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESW 231
           GLYG+GGVGKTTLL QINN FL T +NFD VIW VVS+   L ++Q  I +K+G C++ W
Sbjct: 179 GLYGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDDKW 238

Query: 232 DSKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCG 269
            SKS  EKA +I++ +   +F++    M E + + + G
Sbjct: 239 KSKSRHEKANDIWRALSKKRFVMLLDDMWEQMDLLEVG 276

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	532
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.475	0.284	0.352	5.6e-64
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.473	0.282	0.363	1.2e-63
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.477	0.287	0.381	1.3e-63
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.477	0.287	0.356	9.1e-62
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.473	0.260	0.371	1.3e-59
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.473	0.283	0.359	2.6e-59
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.471	0.279	0.363	3.6e-58
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.477	0.290	0.321	2.4e-55
TAIR|locus:2203881	893	AT1G62630 [Arabidopsis thalian	0.469	0.279	0.343	7.8e-52
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.498	0.295	0.317	4.5e-49

TAIR|locus:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 416 (151.5 bits), Expect = 5.6e-64, Sum P(2) = 5.6e-64
 Identities = 92/261 (35%), Positives = 143/261 (54%)

Query:     1 MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
             MG   S   SCD        C+     YI  L++NL AL+   +++ + R D+  +++  
Sbjct:     1 MGGCVSVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSE 60

Query:    61 EQRQMRRLQQVQGWLSRVQDVEKEVPRLSR-------KINLGGFCSGNCVERYKDGKRVV 113
             E+R ++RL  VQGW+S+V+ +   V  L R       ++ L GFCS N V  Y+ GKRV+
Sbjct:    61 ERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVM 120

Query:   114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXXXXX 173
             ++++ V+ LR +GDF  VA+ V    V+ERP  P +V +   L+  W  L E+       
Sbjct:   121 KMIEEVEVLRYQGDFAVVAERVDAARVEERPTRP-MVAMDPMLESAWNRLMEDEIGILGL 179

Query:   174 XXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
                    KTTLL+ INN F      FD VIW VVS++LQ+ +IQ+ I +K+   NE W  
Sbjct:   180 HGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQ 239

Query:   234 KSFDEKAQEIFKTMRNTKFLI 254
             K+ D KA  I+  +++ +F++
Sbjct:   240 KTEDIKASNIYNVLKHKRFVL 260

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 417 (151.9 bits), Expect = 1.2e-63, Sum P(2) = 1.2e-63
 Identities = 95/261 (36%), Positives = 138/261 (52%)

Query:     1 MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
             MG+  S Q SCD  ++R   C  S   YI  LKDN+ AL    + L   R+DV  RV + 
Sbjct:     1 MGSCISLQISCDQVLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQME 60

Query:    61 EQRQMRRLQQVQGWLSRVQDVEKEVPRL--SRKINLGGFC-----SGNCVERYKDGKRVV 113
             E + + RLQQVQ WL RV+ +  +   L  +R I +   C     S N    Y  G+RV 
Sbjct:    61 EGKGLERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVF 120

Query:   114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXXXXX 173
              ++K V++L   G F+ VA   P+  ++ RP+ PT++G ++   R W  L ++       
Sbjct:   121 LMIKEVENLNSNGFFEIVAAPAPK--LEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGL 178

Query:   174 XXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
                    KTTLLTQI+N+   T N  D VIW VVS DLQ+ KIQE I +K+G   + W+ 
Sbjct:   179 YGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNK 238

Query:   234 KSFDEKAQEIFKTMRNTKFLI 254
             K   +KA +I   +   +F++
Sbjct:   239 KQESQKAVDILNCLSKKRFVL 259

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 428 (155.7 bits), Expect = 1.3e-63, Sum P(2) = 1.3e-63
 Identities = 100/262 (38%), Positives = 140/262 (53%)

Query:     1 MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
             MG   S   SCD  +++    +     YI +L +NL +L+     L   R+DVQ R+   
Sbjct:     1 MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINRE 60

Query:    61 E-QRQMRRLQQVQGWLSRVQDVEKEVPRLSRKIN-------LGGFCSGNCVERYKDGKRV 112
             E     RRL QVQ WL+R+Q +E +   L    N       L GFCS N    Y  GKRV
Sbjct:    61 EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query:   113 VELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXXXX 172
             + LL+ V+ L  +G F  V +  P   V+E P+  T+VG  S LD+VW CL E+      
Sbjct:   121 IVLLREVEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVG 180

Query:   173 XXXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWD 232
                     KTTLLTQINN F      FD VIW VVS++  + KIQ+SI +K+GL  ++WD
Sbjct:   181 LYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWD 240

Query:   233 SKSFDEKAQEIFKTMRNTKFLI 254
              K+ +++A +I   +R  KF++
Sbjct:   241 EKNKNQRALDIHNVLRRKKFVL 262

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 398 (145.2 bits), Expect = 9.1e-62, Sum P(3) = 9.1e-62
 Identities = 93/261 (35%), Positives = 140/261 (53%)

Query:     1 MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
             MG   S Q SCD  ++    C   K  YI ++K+NL +L    + L   R+D+  +V  A
Sbjct:     1 MGGCVSVQVSCDQLLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTA 60

Query:    61 EQRQMRRLQQVQGWLSRVQDVEKEVPRL--SRKINLGGFC-----SGNCVERYKDGKRVV 113
             E+  ++RL Q++ WL RV+ +E +   L  SR + L   C     S N    Y  G+RV 
Sbjct:    61 EEGGLQRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVF 120

Query:   114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXXXXX 173
              +L  V+ L+ +G F++VA        +ERPL PT+VG ++ L++ W  L ++       
Sbjct:   121 LMLNIVEDLKSKGIFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGL 180

Query:   174 XXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
                    KTTLLTQINN F  T +  + VIW VVS DLQ+ KIQ+ I +KIG     W+ 
Sbjct:   181 YGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQ 240

Query:   234 KSFDEKAQEIFKTMRNTKFLI 254
             KS ++KA +I   +   +F++
Sbjct:   241 KSENQKAVDILNFLSKKRFVL 261

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 425 (154.7 bits), Expect = 1.3e-59, Sum P(2) = 1.3e-59
 Identities = 97/261 (37%), Positives = 148/261 (56%)

Query:     1 MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
             MGN    + S D  + R + C+  K GYI +L+ NL AL+ + + L   +++VQ +V   
Sbjct:     1 MGNFVCIEISGDQMLDRIIRCLCGK-GYIRNLEKNLRALQREMEDLRATQHEVQNKVARE 59

Query:    61 EQRQMRRLQQVQGWLSRVQ--DVE-KEVPRLS----RKINLGGFCSGNCVERYKDGKRVV 113
             E R  +RL+ VQ WL RV   D+E K++  +S    +K+ L G CS      YK GKRV 
Sbjct:    60 ESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVF 119

Query:   114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXXXXX 173
              LL+ V  L+ EG+F +V+Q  P + V+ERP  PT+ G +  L + W  L E+       
Sbjct:   120 LLLEEVTKLKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMEDGVGIMGL 178

Query:   174 XXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
                    KTTL  +I+N F  T   FD VIW VVS+  +L K+QE IA+K+ LC++ W +
Sbjct:   179 HGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKN 238

Query:   234 KSFDEKAQEIFKTMRNTKFLI 254
             K+  +KA +I + ++  +F++
Sbjct:   239 KNESDKATDIHRVLKGKRFVL 259

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 376 (137.4 bits), Expect = 2.6e-59, Sum P(2) = 2.6e-59
 Identities = 95/264 (35%), Positives = 138/264 (52%)

Query:     1 MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
             MG   S    CD  +S+    +  +  YI +L  NL +L+   + L   + DV IR +  
Sbjct:     1 MGGCFSVSLPCDQVVSQFSQLLCVRGSYIHNLSKNLASLQKAMRMLKARQYDV-IRRLET 59

Query:    61 EQ---RQMRRLQQVQGWLSRVQDVEKEVPRLSR-------KINLGGFCSGNCVERYKDGK 110
             E+   RQ +RL QVQ WL+ V  ++ +   L R       ++ L GFCS +    Y+ GK
Sbjct:    60 EEFTGRQ-QRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGK 118

Query:   111 RVVELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXX 170
             RV+ +LK V+SL  +G F  V++  P   VDE P  PT+VG +  L++ W  L E+    
Sbjct:   119 RVIMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGI 178

Query:   171 XXXXXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES 230
                       KTTLLT+INN F    + FD VIW VVSR   + KIQ  IA+K+GL    
Sbjct:   179 LGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGME 238

Query:   231 WDSKSFDEKAQEIFKTMRNTKFLI 254
             W  K+ ++ A +I   +R  KF++
Sbjct:   239 WSEKNDNQIAVDIHNVLRRRKFVL 262

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0006952 "defense response" evidence=IMP;TAS

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 417 (151.9 bits), Expect = 3.6e-58, Sum P(2) = 3.6e-58
 Identities = 95/261 (36%), Positives = 147/261 (56%)

Query:     1 MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
             MG+  S Q S D T++R  +C++ K+ YI  L+ NL AL+ + + L   +++VQ +V   
Sbjct:     1 MGSCFSLQVS-DQTLNRIFNCLIGKS-YIRTLEKNLRALQREMEDLRAIQHEVQNKVARD 58

Query:    61 EQRQMRRLQQVQGWLSRVQDVEKE-------VPRLSRKINLGGFCSGNCVERYKDGKRVV 113
             E R  RRL+ VQ WL RV  V+ E        P   +K+ L G CS      YK GK+V 
Sbjct:    59 EARHQRRLEAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVF 118

Query:   114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXXXXX 173
              LL+ V+ L  EG+F +V+Q  P + V+ERP  PT+ G +  L++ W  L E+       
Sbjct:   119 LLLEEVKKLNSEGNFDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMEDGVGIMGL 177

Query:   174 XXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
                    KTTL  +I+N F      FD VIW VVS+ + + K+QE IA+K+ LC++ W +
Sbjct:   178 HGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKN 237

Query:   234 KSFDEKAQEIFKTMRNTKFLI 254
             K+  +KA +I + ++  +F++
Sbjct:   238 KNESDKATDIHRVLKGKRFVL 258

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

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 353 (129.3 bits), Expect = 2.4e-55, Sum P(2) = 2.4e-55
 Identities = 84/261 (32%), Positives = 135/261 (51%)

Query:     1 MGNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVA 60
             MG   S   SCD  ++    C+        +L D++ AL+   ++L   R+D+  R+ V 
Sbjct:     1 MGACFSVAISCDQAVNNLTSCLSRNQNRFRNLVDHVAALKKTVRQLEARRDDLLKRIKVQ 60

Query:    61 EQRQMRRLQQVQGWLSRVQ----DVEKEVPRLSRKI-NL--GGFCSGNCVERYKDGKRVV 113
             E R +  L +VQ WLS V+    +    + +   +I NL  G +CS  C   Y   K V+
Sbjct:    61 EDRGLNLLDEVQQWLSEVESRVCEAHDILSQSDEEIDNLCCGQYCSKRCKYSYDYSKSVI 120

Query:   114 ELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXXXXX 173
               L++V++L  +G F +VAQ  P   V+ER     +VG ++ ++  W  + E        
Sbjct:   121 NKLQDVENLLSKGVFDEVAQKGPIPKVEERLFHQEIVGQEAIVESTWNSMMEVGVGLLGI 180

Query:   174 XXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDS 233
                    KTTLL+QINN F    N+FD  IW VVS++  + +IQE I K++ L NE W+ 
Sbjct:   181 YGMGGVGKTTLLSQINNKFRTVSNDFDIAIWVVVSKNPTVKRIQEDIGKRLDLYNEGWEQ 240

Query:   234 KSFDEKAQEIFKTMRNTKFLI 254
             K+ +E A  I +++ N K+++
Sbjct:   241 KTENEIASTIKRSLENKKYML 261

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2203881 AT1G62630 [Arabidopsis thaliana (taxid:3702)]

 Score = 353 (129.3 bits), Expect = 7.8e-52, Sum P(2) = 7.8e-52
 Identities = 90/262 (34%), Positives = 134/262 (51%)

Query:     1 MGNVCSAQFS-CDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIV 59
             MG   S  F  C   +S+ LD    K  Y  +L+ NL AL T  ++L   R+D+  R+  
Sbjct:     1 MGISFSIPFDPCVNKVSQWLDM---KGSYTHNLEKNLVALETTMEELKAKRDDLLRRLKR 57

Query:    60 AEQRQMRRLQQVQGWLSRVQDVEKEVPRLSR-------KINLGGFCSGNCVERYKDGKRV 112
              E R ++RL + Q WL+RV  VE  +  L R       ++ L  FCS N    Y+ GK V
Sbjct:    58 EEDRGLQRLSEFQVWLNRVATVEDIIITLLRDRDVEIQRLCLCRFCSKNLTTSYRYGKSV 117

Query:   113 VELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXXXX 172
                L+ V+ L+ E  F  + +    +  +ERPL PT+VG +  LD+ W+ L E+      
Sbjct:   118 FLRLREVEKLKGEV-FGVITEQASTSAFEERPLQPTIVGQKKMLDKAWKHLMEDGTGIMG 176

Query:   173 XXXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWD 232
                     KTTLLTQ+ N F      FD  IW VVS+++ + KIQ+ IA+K+GL    W 
Sbjct:   177 MYGMGGVGKTTLLTQLFNMFNKDKCGFDIGIWVVVSQEVNVEKIQDEIAQKLGLGGHEWT 236

Query:   233 SKSFDEKAQEIFKTMRNTKFLI 254
              +   +K   +F  ++N KF++
Sbjct:   237 QRDISQKGVHLFNFLKNKKFVL 258

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2031366 AT1G63350 "AT1G63350" [Arabidopsis thaliana (taxid:3702)]

 Score = 333 (122.3 bits), Expect = 4.5e-49, Sum P(2) = 4.5e-49
 Identities = 88/277 (31%), Positives = 141/277 (50%)

Query:     1 MGNVCSAQFS-CDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIV 59
             MG   S  F  C   +S+ LD  VS   Y  +L+ NL AL T  ++L   R+D+  ++  
Sbjct:     1 MGISFSIPFDPCVNKVSQWLDMKVS---YTHNLEKNLVALETTMEELKAKRDDLLRKLKR 57

Query:    60 AEQRQMRRLQQVQGWLSRVQDVEKEVPRLSRKIN-------LGGFCSGNCVERYKDGKRV 112
              E R ++ L +++ WL+RV+ +E  V  L    N       L GFCS +    Y+ GK V
Sbjct:    58 EEDRGLQTLGEIKVWLNRVETIESRVNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSV 117

Query:   113 VELLKNVQSLRKEGDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTEEPXXXXX 172
                L+ V+ L +   F+ ++     + V+E+ L PT+VG ++ LD  W  L E+      
Sbjct:   118 FLKLREVEKLERRV-FEVISDQASTSEVEEQQLQPTIVGQETMLDNAWNHLMEDGVGIMG 176

Query:   173 XXXXXXXXKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWD 232
                     KTTLLTQINN F      FD VIW VVS+++ +  I + IA+K+ +  E WD
Sbjct:   177 LYGMGGVGKTTLLTQINNKFSKYMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWD 236

Query:   233 SKSFDEKAQEIFKTMRNTKFLISNLKMLEALRMFKCG 269
             +K   +K   ++  +R  +F++    + E + + + G
Sbjct:   237 TKYKYQKGVYLYNFLRKMRFVLFLDDIWEKVNLVEIG 273

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	532
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-20
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-06

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score = 91.2 bits (227), Expect = 2e-20
 Identities = 36/104 (34%), Positives = 58/104 (55%), Gaps = 3/104 (2%)

Query: 153 QSTLDRVWRCLTEEP--VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRD 210
           +  ++ +   L E    +G+VG+ GMGGVGKTTL  QI N       +FD V W VVS+ 
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDD-SVGGHFDSVAWVVVSKT 60

Query: 211 LQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLI 254
               ++Q+ I +++GL +  W  K+  E A +I + +   +FL+
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLL 104

Length = 285

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 51.0 bits (122), Expect = 1e-06
 Identities = 66/262 (25%), Positives = 112/262 (42%), Gaps = 72/262 (27%)

Query: 287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLAS 346
           V  L GL++++     L     L+ +   P L S+ +N  +L L++C SL  L   ++  
Sbjct: 630 VHSLTGLRNID-----LRGSKNLKEI---PDL-SMATNLETLKLSDCSSLVELP-SSIQY 679

Query: 347 LRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWG-SKLR-------HV 398
           L  LE LDM  C++LE +     G  +K         SL+++++ G S+L+       ++
Sbjct: 680 LNKLEDLDMSRCENLEILPT---GINLK---------SLYRLNLSGCSRLKSFPDISTNI 727

Query: 399 TWLILA--------PNLKLIQMYD---CRCLEEII----------------SLEKLG--- 428
           +WL L          NL+L  + +   C    E +                SL +L    
Sbjct: 728 SWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSD 787

Query: 429 -----EVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLP 483
                E+PS  +QN     +LE L +    NL ++ P  +    L+ L ++ C +L+  P
Sbjct: 788 IPSLVELPS-SIQN---LHKLEHLEIENCINLETL-PTGINLESLESLDLSGCSRLRTFP 842

Query: 484 FDCTSGHERKLIIKGQEE--WW 503
              T+  +  L   G EE  WW
Sbjct: 843 DISTNISDLNLSRTGIEEVPWW 864

syringae 6; Provisional. Length = 1153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	532
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.91
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.53
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.35
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	98.81
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	98.77
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.58
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	98.52
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.51
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.49
PRK15386	426	type III secretion protein GogB; Provisional	98.39
KOG0617	264	consensus Ras suppressor protein (contains leucine	98.34
PRK15386	426	type III secretion protein GogB; Provisional	98.25
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.23
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.22
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.21
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.12
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.11
PTZ00202	550	tuzin; Provisional	98.1
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.07
cd01128	249	rho_factor Transcription termination factor rho is	98.01
PRK09376	416	rho transcription termination factor Rho; Provisio	97.98
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.97
KOG0472	565	consensus Leucine-rich repeat protein [Function un	97.92
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	97.91
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	97.9
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	97.9
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.84
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.77
TIGR00767	415	rho transcription termination factor Rho. Members	97.75
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	97.75
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.71
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	97.7
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.65
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	97.62
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	97.6
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	97.6
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.57
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.54
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.45
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.39
PRK08118	167	topology modulation protein; Reviewed	97.34
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	97.32
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	97.29
KOG0472	565	consensus Leucine-rich repeat protein [Function un	97.25
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.21
KOG4341	483	consensus F-box protein containing LRR [General fu	97.2
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.19
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	97.17
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	97.04
PTZ00112	1164	origin recognition complex 1 protein; Provisional	96.99
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	96.98
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	96.9
PF05729	166	NACHT: NACHT domain	96.9
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.89
PLN03150	623	hypothetical protein; Provisional	96.88
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.84
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	96.83
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.75
PRK13342	413	recombination factor protein RarA; Reviewed	96.72
KOG4341	483	consensus F-box protein containing LRR [General fu	96.67
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.67
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	96.65
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	96.61
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.6
PLN03150	623	hypothetical protein; Provisional	96.58
PRK07261	171	topology modulation protein; Provisional	96.58
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.53
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	96.5
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.44
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	96.4
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.33
PRK06696	223	uridine kinase; Validated	96.28
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	96.27
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.24
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	96.24
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.24
KOG2028	554	consensus ATPase related to the helicase subunit o	96.24
COG2256	436	MGS1 ATPase related to the helicase subunit of the	96.21
PRK12402	337	replication factor C small subunit 2; Reviewed	96.18
PRK05564	313	DNA polymerase III subunit delta'; Validated	96.14
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.13
PRK15455	644	PrkA family serine protein kinase; Provisional	96.12
CHL00095	821	clpC Clp protease ATP binding subunit	96.12
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.11
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	96.1
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.08
PRK06547	172	hypothetical protein; Provisional	96.06
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	96.06
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.02
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.0
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	95.95
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	95.94
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	95.91
PLN03025	319	replication factor C subunit; Provisional	95.89
PRK10865	857	protein disaggregation chaperone; Provisional	95.88
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.87
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.85
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	95.8
PRK08181	269	transposase; Validated	95.78
PRK13341	725	recombination factor protein RarA/unknown domain f	95.77
PRK12608	380	transcription termination factor Rho; Provisional	95.77
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	95.72
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.72
PRK03992	389	proteasome-activating nucleotidase; Provisional	95.72
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	95.71
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.7
PRK04195	482	replication factor C large subunit; Provisional	95.67
PF13173	128	AAA_14: AAA domain	95.64
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	95.63
PHA00729	226	NTP-binding motif containing protein	95.6
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.57
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	95.57
PRK08233	182	hypothetical protein; Provisional	95.52
KOG4237	498	consensus Extracellular matrix protein slit, conta	95.52
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.5
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	95.47
PRK07667	193	uridine kinase; Provisional	95.47
PRK13531	498	regulatory ATPase RavA; Provisional	95.47
PRK05480	209	uridine/cytidine kinase; Provisional	95.46
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.46
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	95.46
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.43
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	95.4
PRK05541	176	adenylylsulfate kinase; Provisional	95.39
smart00382	148	AAA ATPases associated with a variety of cellular	95.38
PRK10536	262	hypothetical protein; Provisional	95.37
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	95.34
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	95.34
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.31
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.28
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.28
PHA02544	316	44 clamp loader, small subunit; Provisional	95.27
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.26
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	95.23
PRK06762	166	hypothetical protein; Provisional	95.2
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.16
PTZ00301	210	uridine kinase; Provisional	95.16
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	95.16
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.14
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.11
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	95.07
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.05
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.04
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	95.0
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	94.97
PRK08903	227	DnaA regulatory inactivator Hda; Validated	94.95
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	94.94
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.93
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	94.91
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	94.81
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.81
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	94.81
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	94.78
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	94.77
PRK08084	235	DNA replication initiation factor; Provisional	94.77
PRK03839	180	putative kinase; Provisional	94.72
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	94.69
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	94.69
PF00004	132	AAA: ATPase family associated with various cellula	94.63
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	94.63
TIGR02237	209	recomb_radB DNA repair and recombination protein R	94.61
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	94.6
PRK05439	311	pantothenate kinase; Provisional	94.6
PRK04841	903	transcriptional regulator MalT; Provisional	94.59
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	94.59
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	94.58
PRK08727	233	hypothetical protein; Validated	94.53
PRK04040	188	adenylate kinase; Provisional	94.53
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	94.52
CHL00181	287	cbbX CbbX; Provisional	94.52
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	94.52
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.48
PRK10865	857	protein disaggregation chaperone; Provisional	94.47
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	94.44
PRK13765	637	ATP-dependent protease Lon; Provisional	94.39
KOG4237	498	consensus Extracellular matrix protein slit, conta	94.37
PRK08116	268	hypothetical protein; Validated	94.36
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	94.34
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	94.3
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	94.3
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	94.26
PRK06893	229	DNA replication initiation factor; Validated	94.24
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	94.22
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	94.2
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	94.16
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	94.15
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	94.13
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	94.13
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	94.12
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.09
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	94.07
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.06
PRK00625	173	shikimate kinase; Provisional	94.06
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	94.06
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	94.02
PRK13975	196	thymidylate kinase; Provisional	93.98
PRK00131	175	aroK shikimate kinase; Reviewed	93.98
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	93.97
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	93.95
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	93.95
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	93.93
PRK12377	248	putative replication protein; Provisional	93.92
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	93.9
COG3899	849	Predicted ATPase [General function prediction only	93.88
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	93.88
PRK06217	183	hypothetical protein; Validated	93.88
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	93.87
PRK07952	244	DNA replication protein DnaC; Validated	93.87
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	93.86
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	93.85
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	93.85
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	93.83
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	93.81
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	93.8
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	93.79
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	93.79
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	93.79
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	93.77
PF07726	131	AAA_3: ATPase family associated with various cellu	93.77
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	93.76
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	93.75
PRK00889	175	adenylylsulfate kinase; Provisional	93.72
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	93.7
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	93.7
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	93.69
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	93.69
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	93.68
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	93.68
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	93.67
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	93.63
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	93.56
PRK13947	171	shikimate kinase; Provisional	93.54
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	93.53
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	93.5
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	93.48
PRK09087	226	hypothetical protein; Validated	93.46
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	93.46
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	93.45
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	93.45
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	93.45
PRK13949	169	shikimate kinase; Provisional	93.44
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	93.42
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	93.42
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	93.42
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	93.4
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	93.4
COG0488	530	Uup ATPase components of ABC transporters with dup	93.4
PRK07940	394	DNA polymerase III subunit delta'; Validated	93.39
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	93.36
PRK00300	205	gmk guanylate kinase; Provisional	93.32
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	93.3
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	93.29
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	93.28
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	93.25
PRK03846	198	adenylylsulfate kinase; Provisional	93.23
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	93.23
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	93.22
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	93.21
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	93.21
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	93.19
PRK04220	301	2-phosphoglycerate kinase; Provisional	93.16
PRK15453	290	phosphoribulokinase; Provisional	93.15
COG1484	254	DnaC DNA replication protein [DNA replication, rec	93.13
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	93.12
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	93.11
PF13245	76	AAA_19: Part of AAA domain	93.1
PRK06851	367	hypothetical protein; Provisional	93.08
COG0125	208	Tmk Thymidylate kinase [Nucleotide transport and m	93.08
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	93.04
PLN02924	220	thymidylate kinase	93.04
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	93.04
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	92.98
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	92.98
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	92.97
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	92.96
PRK14530	215	adenylate kinase; Provisional	92.95
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	92.95
PRK12339	197	2-phosphoglycerate kinase; Provisional	92.95
PRK05057	172	aroK shikimate kinase I; Reviewed	92.94
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	92.94
PRK05642	234	DNA replication initiation factor; Validated	92.93
TIGR01287	275	nifH nitrogenase iron protein. This model describe	92.93
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	92.93
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	92.91
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	92.9
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	92.86
cd01394	218	radB RadB. The archaeal protein radB shares simila	92.86
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	92.86
cd03115	173	SRP The signal recognition particle (SRP) mediates	92.81
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	92.81
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	92.8
PRK13695	174	putative NTPase; Provisional	92.77
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	92.67
PRK12422	445	chromosomal replication initiation protein; Provis	92.66
PRK13946	184	shikimate kinase; Provisional	92.66
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	92.65
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	92.63
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	92.61
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	92.58
PRK14527	191	adenylate kinase; Provisional	92.57
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	92.57
PF00005	137	ABC_tran: ABC transporter This structure is on hol	92.52
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	92.52
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	92.51
COG1100	219	GTPase SAR1 and related small G proteins [General	92.5
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	92.48
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	92.47
PRK13948	182	shikimate kinase; Provisional	92.46
PRK00698	205	tmk thymidylate kinase; Validated	92.46
PRK04182	180	cytidylate kinase; Provisional	92.45
PRK14737	186	gmk guanylate kinase; Provisional	92.43
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	92.43
PRK09112	351	DNA polymerase III subunit delta'; Validated	92.42
cd03269	210	ABC_putative_ATPase This subfamily is involved in	92.42
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.41
PRK06835	329	DNA replication protein DnaC; Validated	92.41
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	92.4
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	92.4
PRK06761	282	hypothetical protein; Provisional	92.38
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	92.36
TIGR00064	272	ftsY signal recognition particle-docking protein F	92.35
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	92.31
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	92.3
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	92.28
cd00983	325	recA RecA is a bacterial enzyme which has roles in	92.27
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	92.27
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	92.27
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	92.23
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	92.19
PLN02200	234	adenylate kinase family protein	92.19
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	92.19
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	92.17
PRK13976	209	thymidylate kinase; Provisional	92.17
PRK06620	214	hypothetical protein; Validated	92.17
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	92.17
PRK14087	450	dnaA chromosomal replication initiation protein; P	92.13
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	92.11
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	92.1
PRK14738	206	gmk guanylate kinase; Provisional	92.09
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	92.08
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	92.07
PRK00149	450	dnaA chromosomal replication initiation protein; R	92.07
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	92.03
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	92.03
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	92.03
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	92.02
COG4240	300	Predicted kinase [General function prediction only	92.02
TIGR00959	428	ffh signal recognition particle protein. This mode	92.02
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	92.0
PRK09354	349	recA recombinase A; Provisional	91.95
PRK14088	440	dnaA chromosomal replication initiation protein; P	91.93
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	91.92
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	91.89
cd02117	212	NifH_like This family contains the NifH (iron prot	91.89
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	91.89
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	91.88
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	91.87
PRK09825	176	idnK D-gluconate kinase; Provisional	91.87
PRK13768	253	GTPase; Provisional	91.85
PLN02165	334	adenylate isopentenyltransferase	91.83
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	91.82
cd03116	159	MobB Molybdenum is an essential trace element in t	91.82
PRK08099	399	bifunctional DNA-binding transcriptional repressor	91.8
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	91.8
PHA02244	383	ATPase-like protein	91.79
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	91.75
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	91.72
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	91.72
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	91.72
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	91.71
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	91.71
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	91.7
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	91.7
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	91.7
PRK03731	171	aroL shikimate kinase II; Reviewed	91.7
PLN03046	460	D-glycerate 3-kinase; Provisional	91.69
TIGR00101	199	ureG urease accessory protein UreG. This model rep	91.68
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	91.67
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	91.67
PRK04301	317	radA DNA repair and recombination protein RadA; Va	91.67
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	91.66
PLN02348	395	phosphoribulokinase	91.65
PRK07471	365	DNA polymerase III subunit delta'; Validated	91.64
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	91.64
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	91.64
PLN02796	347	D-glycerate 3-kinase	91.61
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	91.61
PRK09435	332	membrane ATPase/protein kinase; Provisional	91.61
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	91.6
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	91.59
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	91.59
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	91.59
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	91.58
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	91.58
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	91.57
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	91.57
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	91.57
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	91.56
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	91.56
PRK13973	213	thymidylate kinase; Provisional	91.49
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	91.47
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	91.47
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	91.47
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	91.44
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	91.43
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	91.42
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	91.41
PRK08939	306	primosomal protein DnaI; Reviewed	91.39
PRK10867	433	signal recognition particle protein; Provisional	91.39
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	91.38
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	91.38
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	91.37
PRK13232	273	nifH nitrogenase reductase; Reviewed	91.33
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	91.32
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	91.3
PRK13230	279	nitrogenase reductase-like protein; Reviewed	91.3
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	91.3
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	91.28
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	91.28
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	91.26
PRK13236	296	nitrogenase reductase; Reviewed	91.24
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	91.23
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	91.23
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	91.2
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	91.2
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	91.19
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	91.17
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	91.16
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	91.16
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	91.16
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	91.14
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	91.14
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	91.14
cd03114	148	ArgK-like The function of this protein family is u	91.13
COG3903	414	Predicted ATPase [General function prediction only	91.13
cd02040	270	NifH NifH gene encodes component II (iron protein)	91.12
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	91.11
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	91.11
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	91.11
PRK01184	184	hypothetical protein; Provisional	91.09
PRK14532	188	adenylate kinase; Provisional	91.08
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	91.07
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	91.06
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	91.01
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	91.0
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	91.0
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	90.99
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	90.99
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	90.98
KOG1969	877	consensus DNA replication checkpoint protein CHL12	90.98
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	90.97
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	90.97
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	90.97
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	90.97
TIGR02236	310	recomb_radA DNA repair and recombination protein R	90.95
PTZ00088	229	adenylate kinase 1; Provisional	90.93
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	90.91
PRK10416	318	signal recognition particle-docking protein FtsY;	90.9
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	90.9
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	90.89
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	90.84
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	90.84
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	90.82
PRK07933	213	thymidylate kinase; Validated	90.81
PRK13235	274	nifH nitrogenase reductase; Reviewed	90.8
cd03246	173	ABCC_Protease_Secretion This family represents the	90.8
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	90.8
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	90.79
PRK09183	259	transposase/IS protein; Provisional	90.77
COG3638	258	ABC-type phosphate/phosphonate transport system, A	90.76
PRK08356	195	hypothetical protein; Provisional	90.76
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	90.74
KOG0736	953	consensus Peroxisome assembly factor 2 containing	90.73
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	90.73
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	90.72
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	90.71
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	90.7
COG0714	329	MoxR-like ATPases [General function prediction onl	90.7
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	90.69
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	90.69
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	90.68
PRK10908	222	cell division protein FtsE; Provisional	90.65
PLN02318	656	phosphoribulokinase/uridine kinase	90.64
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	90.64
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	90.63
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	90.63
PRK14531	183	adenylate kinase; Provisional	90.6
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	90.6
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	90.58
PRK06526	254	transposase; Provisional	90.58
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	90.58
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	90.57
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	90.56
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	90.53
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	90.5
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	90.48
cd03216	163	ABC_Carb_Monos_I This family represents the domain	90.47
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	90.46
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	90.46

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=2.5e-37  Score=338.96  Aligned_cols=234  Identities=35%  Similarity=0.609  Sum_probs=197.2

Q ss_pred             hHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHhc-
Q 009534           13 GTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEVPRLSRK-   91 (532)
Q Consensus        13 ~v~~kl~~~~~~~~~~~~~~~~~~~~L~~~l~~l~~~l~~v~~~i~~ae~~~~~~~~~~~~Wl~~lr~~~~d~ed~id~-   91 (532)
                      ..++++.+++.++...+.+.++++..|++++..++.++.|       |++++.. ...+..|.+.+++++|++||+++. 
T Consensus         7 ~~~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d-------~~a~~~~-~~~~~~~~e~~~~~~~~~e~~~~~~   78 (889)
T KOG4658|consen    7 FGVEKLDQLLNRESECLDGKDNYILELKENLKALQSALED-------LDAKRDD-LERRVNWEEDVGDLVYLAEDIIWLF   78 (889)
T ss_pred             EehhhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH-------HHhhcch-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3556777788888889999999999999999999999998       6666653 488999999999999999999988 


Q ss_pred             ----------------------cccCCCCCCchhhhchHHHHHHHHHHHHHHHHhcCCCCcccc-cCCCCCCCCCCCCCc
Q 009534           92 ----------------------INLGGFCSGNCVERYKDGKRVVELLKNVQSLRKEGDFKDVAQ-TVPENPVDERPLPPT  148 (532)
Q Consensus        92 ----------------------~~~~~~~~~~~~~r~~i~~~i~~i~~~i~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~  148 (532)
                                            .|..++|......-+.+++++-++.++++.+..++.|..++. ..+......+|..+.
T Consensus        79 ~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~  158 (889)
T KOG4658|consen   79 LVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSE  158 (889)
T ss_pred             HHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcc
Confidence                                  112245666777777888999999999998888776766664 233334444444343


Q ss_pred             c-cccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccC-CCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcC
Q 009534          149 V-VGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLH-TPNNFDFVIWEVVSRDLQLGKIQESIAKKIGL  226 (532)
Q Consensus       149 ~-vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~-~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~  226 (532)
                      . ||.+..++++.+.|.+++..++||+||||+||||||+.+||+. . ++++||.++||.||+.++...++++|+..++.
T Consensus       159 ~~VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~-~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~  237 (889)
T KOG4658|consen  159 SDVGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKF-DEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGL  237 (889)
T ss_pred             ccccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhccc-chhcccCceEEEEEEcccccHHhHHHHHHHHhcc
Confidence            3 9999999999999999888999999999999999999999999 6 99999999999999999999999999999998


Q ss_pred             CCCCCCCCCHHHHHHHHHHHhcCCcEEEe
Q 009534          227 CNESWDSKSFDEKAQEIFKTMRNTKFLIS  255 (532)
Q Consensus       227 ~~~~~~~~~~~~~~~~l~~~L~~kr~LlV  255 (532)
                      ....+.....++.+..|.+.|++|||+||
T Consensus       238 ~~~~~~~~~~~~~~~~i~~~L~~krfllv  266 (889)
T KOG4658|consen  238 LDEEWEDKEEDELASKLLNLLEGKRFLLV  266 (889)
T ss_pred             CCcccchhhHHHHHHHHHHHhccCceEEE
Confidence            66555555668899999999999999999

>PLN03210 Resistant to P

Probab=99.91  E-value=2.4e-22  Score=232.05  Aligned_cols=101  Identities=20%  Similarity=0.314  Sum_probs=72.4

Q ss_pred             CcccccHHHHHHHHHHhc--cCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEe---CCC-----------
Q 009534          147 PTVVGLQSTLDRVWRCLT--EEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVV---SRD-----------  210 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v---~~~-----------  210 (532)
                      +++||++++++++.++|.  .+++++|+||||||+||||||+++|++.   ..+|++.+|+..   +..           
T Consensus       184 ~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l---~~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        184 EDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRL---SRQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             ccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHH---hhcCCeEEEeeccccccchhhcccccccc
Confidence            568999999999999885  3479999999999999999999999988   478999988742   111           


Q ss_pred             CC-HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhcCCcEEEe
Q 009534          211 LQ-LGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLIS  255 (532)
Q Consensus       211 ~~-~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlV  255 (532)
                      ++ ...++++++..+..... .....    ...+++.++++|+|||
T Consensus       261 ~~~~~~l~~~~l~~il~~~~-~~~~~----~~~~~~~L~~krvLLV  301 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKD-IKIYH----LGAMEERLKHRKVLIF  301 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCC-cccCC----HHHHHHHHhCCeEEEE
Confidence            01 23455566655543211 01111    2457788889999988

syringae 6; Provisional

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=99.53  E-value=5.6e-14  Score=138.75  Aligned_cols=103  Identities=28%  Similarity=0.533  Sum_probs=91.2

Q ss_pred             cHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCC
Q 009534          152 LQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNE  229 (532)
Q Consensus       152 r~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~  229 (532)
                      ||.++++|.++|.+  ++.++|+|+||||+||||||+.+|++. .++++|+.++|+.+++..+...+++.|+.+++....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~-~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDL-RIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHH-HHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccc-cccccccccccccccccccccccccccccccccccc
Confidence            78999999999988  789999999999999999999999996 467999999999999999999999999999988743


Q ss_pred             CC-CCCCHHHHHHHHHHHhcCCcEEEe
Q 009534          230 SW-DSKSFDEKAQEIFKTMRNTKFLIS  255 (532)
Q Consensus       230 ~~-~~~~~~~~~~~l~~~L~~kr~LlV  255 (532)
                      .. ...+.......+.+.|+++++|+|
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlV  106 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLV  106 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEE
T ss_pred             ccccccccccccccchhhhccccceee
Confidence            33 566788899999999999999999

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.

>PLN03210 Resistant to P

Probab=99.35  E-value=1.6e-12  Score=150.82  Aligned_cols=165  Identities=25%  Similarity=0.409  Sum_probs=91.7

Q ss_pred             hhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeee
Q 009534          287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI  366 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~  366 (532)
                      +++...+++|+.|+  +..+..+..++..    ..+++|+.|++.+|..+..+|.. +.++++|+.|++++|..++.+|.
T Consensus       627 ~~~~~~l~~Lk~L~--Ls~~~~l~~ip~l----s~l~~Le~L~L~~c~~L~~lp~s-i~~L~~L~~L~L~~c~~L~~Lp~  699 (1153)
T PLN03210        627 WDGVHSLTGLRNID--LRGSKNLKEIPDL----SMATNLETLKLSDCSSLVELPSS-IQYLNKLEDLDMSRCENLEILPT  699 (1153)
T ss_pred             ccccccCCCCCEEE--CCCCCCcCcCCcc----ccCCcccEEEecCCCCccccchh-hhccCCCCEEeCCCCCCcCccCC
Confidence            33445566666666  3344334444321    12456777777777777777654 66677777777777777766655


Q ss_pred             cccCCccccccccCCCCCccEEEEeCC-ccccCCch--------------------hcC---------------------
Q 009534          367 DYAGGEVKRIRETHGFFSLHKVSIWGS-KLRHVTWL--------------------ILA---------------------  404 (532)
Q Consensus       367 ~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~l~~l--------------------~~l---------------------  404 (532)
                      ..            ++++|++|++++| .+..+|..                    ..+                     
T Consensus       700 ~i------------~l~sL~~L~Lsgc~~L~~~p~~~~nL~~L~L~~n~i~~lP~~~~l~~L~~L~l~~~~~~~l~~~~~  767 (1153)
T PLN03210        700 GI------------NLKSLYRLNLSGCSRLKSFPDISTNISWLDLDETAIEEFPSNLRLENLDELILCEMKSEKLWERVQ  767 (1153)
T ss_pred             cC------------CCCCCCEEeCCCCCCccccccccCCcCeeecCCCccccccccccccccccccccccchhhcccccc
Confidence            32            2445555555555 44433311                    111                     


Q ss_pred             ----------CCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeec
Q 009534          405 ----------PNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVT  474 (532)
Q Consensus       405 ----------~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~  474 (532)
                                ++|+.|++++|+.+.++|.             .+..+++|+.|++.+|++++.+|... .+++|+.|+++
T Consensus       768 ~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~-------------si~~L~~L~~L~Ls~C~~L~~LP~~~-~L~sL~~L~Ls  833 (1153)
T PLN03210        768 PLTPLMTMLSPSLTRLFLSDIPSLVELPS-------------SIQNLHKLEHLEIENCINLETLPTGI-NLESLESLDLS  833 (1153)
T ss_pred             ccchhhhhccccchheeCCCCCCccccCh-------------hhhCCCCCCEEECCCCCCcCeeCCCC-CccccCEEECC
Confidence                      1222333333332223322             55667777777777777777776544 56777777777


Q ss_pred             CCCCCCCCCC
Q 009534          475 LCPKLKKLPF  484 (532)
Q Consensus       475 ~C~~L~~lp~  484 (532)
                      +|.+++.+|.
T Consensus       834 ~c~~L~~~p~  843 (1153)
T PLN03210        834 GCSRLRTFPD  843 (1153)
T ss_pred             CCCccccccc
Confidence            7777766654

syringae 6; Provisional

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=98.81  E-value=7.2e-09  Score=119.71  Aligned_cols=183  Identities=15%  Similarity=0.133  Sum_probs=92.1

Q ss_pred             hhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeee
Q 009534          287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI  366 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~  366 (532)
                      ...+..+++|+.|+++  ++.....++..   ...+++|++|++++|.-...+|.. +.++++|+.|+++++.....+|.
T Consensus       157 p~~~~~l~~L~~L~L~--~n~l~~~~p~~---~~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l~~~~p~  230 (968)
T PLN00113        157 PNDIGSFSSLKVLDLG--GNVLVGKIPNS---LTNLTSLEFLTLASNQLVGQIPRE-LGQMKSLKWIYLGYNNLSGEIPY  230 (968)
T ss_pred             ChHHhcCCCCCEEECc--cCcccccCChh---hhhCcCCCeeeccCCCCcCcCChH-HcCcCCccEEECcCCccCCcCCh
Confidence            3445566666666633  22211122211   122344666666655433334432 55555666665555432222222


Q ss_pred             cccC-------------CccccccccCCCCCccEEEEeCCcccc-CC-chhcCCCcceeeeccccccccccccccccCcC
Q 009534          367 DYAG-------------GEVKRIRETHGFFSLHKVSIWGSKLRH-VT-WLILAPNLKLIQMYDCRCLEEIISLEKLGEVP  431 (532)
Q Consensus       367 ~~~~-------------~~~~~~~~~~~l~~L~~L~l~~c~L~~-l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~  431 (532)
                      ....             ..+..+.....+++|++|++++|++.. +| ++..+++|+.|++++|.-...++.        
T Consensus       231 ~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~--------  302 (968)
T PLN00113        231 EIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPE--------  302 (968)
T ss_pred             hHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCCh--------
Confidence            1111             000011112235555555555553332 33 244555556666555543223332        


Q ss_pred             cccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCC
Q 009534          432 SEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTS  488 (532)
Q Consensus       432 ~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~  488 (532)
                           .+..+++|+.|++.++.-...+|.....+++|+.|++.+|.-...+|.....
T Consensus       303 -----~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~  354 (968)
T PLN00113        303 -----LVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGK  354 (968)
T ss_pred             -----hHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHhC
Confidence                 5666778888888776655556666677888888888888766677754433

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=98.77  E-value=9.7e-09  Score=118.65  Aligned_cols=177  Identities=14%  Similarity=0.100  Sum_probs=92.9

Q ss_pred             CCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCC
Q 009534          292 GLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGG  371 (532)
Q Consensus       292 ~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~  371 (532)
                      .+++|+.|+++  .+.....++.   ....+++|++|+++++.-...+|.. +.++++|++|++++|.....+|....  
T Consensus       138 ~l~~L~~L~Ls--~n~~~~~~p~---~~~~l~~L~~L~L~~n~l~~~~p~~-~~~l~~L~~L~L~~n~l~~~~p~~l~--  209 (968)
T PLN00113        138 SIPNLETLDLS--NNMLSGEIPN---DIGSFSSLKVLDLGGNVLVGKIPNS-LTNLTSLEFLTLASNQLVGQIPRELG--  209 (968)
T ss_pred             ccCCCCEEECc--CCcccccCCh---HHhcCCCCCEEECccCcccccCChh-hhhCcCCCeeeccCCCCcCcCChHHc--
Confidence            46778888844  3322112222   2223567999999887654566654 78888999999888754433343222  


Q ss_pred             ccccccccCCCCCccEEEEeCCcccc-CCc-hhcCCCcceeeeccccccccccccccc-----------cCcCcccCccc
Q 009534          372 EVKRIRETHGFFSLHKVSIWGSKLRH-VTW-LILAPNLKLIQMYDCRCLEEIISLEKL-----------GEVPSEEMQNL  438 (532)
Q Consensus       372 ~~~~~~~~~~l~~L~~L~l~~c~L~~-l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~-----------~~~~~~~~~~~  438 (532)
                               .+++|++|++++|++.. +|. ++.+++|++|++++|.-...++..-..           .......+..+
T Consensus       210 ---------~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l  280 (968)
T PLN00113        210 ---------QMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSI  280 (968)
T ss_pred             ---------CcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhH
Confidence                     35555555555553332 332 445555555555544322222210000           00000001245


Q ss_pred             ccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCC
Q 009534          439 IPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFD  485 (532)
Q Consensus       439 ~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~  485 (532)
                      ..+++|+.|++++|.-...+|.....+++|+.|++.+|.-...+|..
T Consensus       281 ~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~  327 (968)
T PLN00113        281 FSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVA  327 (968)
T ss_pred             hhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChh
Confidence            55667777777666444445555566677777777776655555543

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=98.58  E-value=2.5e-09  Score=109.20  Aligned_cols=61  Identities=15%  Similarity=0.100  Sum_probs=36.5

Q ss_pred             ccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecch
Q 009534          437 NLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       437 ~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~  500 (532)
                      .++.+.+|+.+...+ .+|+-.|.+++.|+.|++|.+ +|..|-.+|..+.-. +.|+..+..+
T Consensus       311 GIGKL~~Levf~aan-N~LElVPEglcRC~kL~kL~L-~~NrLiTLPeaIHlL-~~l~vLDlre  371 (1255)
T KOG0444|consen  311 GIGKLIQLEVFHAAN-NKLELVPEGLCRCVKLQKLKL-DHNRLITLPEAIHLL-PDLKVLDLRE  371 (1255)
T ss_pred             chhhhhhhHHHHhhc-cccccCchhhhhhHHHHHhcc-cccceeechhhhhhc-CCcceeeccC
Confidence            455555555555544 345555666666777777776 367777788765433 6666655443

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=98.52  E-value=2e-08  Score=102.81  Aligned_cols=169  Identities=17%  Similarity=0.183  Sum_probs=112.8

Q ss_pred             hcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeC
Q 009534          313 LTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWG  392 (532)
Q Consensus       313 ~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~  392 (532)
                      ...+.....|.||+.++++. +++..+|.- +-.+++|+.|++++. .++.+......           -.+|++|+++.
T Consensus       212 ~N~Ptsld~l~NL~dvDlS~-N~Lp~vPec-ly~l~~LrrLNLS~N-~iteL~~~~~~-----------W~~lEtLNlSr  277 (1255)
T KOG0444|consen  212 DNIPTSLDDLHNLRDVDLSE-NNLPIVPEC-LYKLRNLRRLNLSGN-KITELNMTEGE-----------WENLETLNLSR  277 (1255)
T ss_pred             hcCCCchhhhhhhhhccccc-cCCCcchHH-HhhhhhhheeccCcC-ceeeeeccHHH-----------Hhhhhhhcccc
Confidence            33344444567788888875 557777765 667788888888873 56655442221           34555555555


Q ss_pred             CccccCCc-hhcCCCcceeeeccc------------------------cccccccccccccCcCcccCccccccccccee
Q 009534          393 SKLRHVTW-LILAPNLKLIQMYDC------------------------RCLEEIISLEKLGEVPSEEMQNLIPFARLERL  447 (532)
Q Consensus       393 c~L~~l~~-l~~l~~L~~L~l~~c------------------------~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L  447 (532)
                      |.|+.+|. +.+++.|+.|++.+.                        ++++-+|             +.+..+++|+.|
T Consensus       278 NQLt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~LElVP-------------EglcRC~kL~kL  344 (1255)
T KOG0444|consen  278 NQLTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNKLELVP-------------EGLCRCVKLQKL  344 (1255)
T ss_pred             chhccchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccccccCc-------------hhhhhhHHHHHh
Confidence            55555554 444555555544321                        2233333             488899999999


Q ss_pred             eccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecchhhhhhcccCc
Q 009534          448 SLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNNLQWDD  510 (532)
Q Consensus       448 ~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~w~~~l~w~~  510 (532)
                      .|.. ..|..+|..+.-+|.|+.|++++.|+|-.-|.-.... +.|...+......+.+.--+
T Consensus       345 ~L~~-NrLiTLPeaIHlL~~l~vLDlreNpnLVMPPKP~da~-~~lefYNIDFSLq~QlrlAG  405 (1255)
T KOG0444|consen  345 KLDH-NRLITLPEAIHLLPDLKVLDLRENPNLVMPPKPNDAR-KKLEFYNIDFSLQHQLRLAG  405 (1255)
T ss_pred             cccc-cceeechhhhhhcCCcceeeccCCcCccCCCCcchhh-hcceeeecceehhhHHhhcc
Confidence            9975 5677899988899999999999999998877644333 67777777777766665444

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=98.51  E-value=2.1e-09  Score=92.89  Aligned_cols=135  Identities=21%  Similarity=0.294  Sum_probs=79.3

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc--CC
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH--VT  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~--l~  399 (532)
                      +.||+.|++.+ ++++.+|.+ +++++.|+.|+++- ..+..+|-++.           +||-|+.|++..++|.+  +|
T Consensus        55 l~nlevln~~n-nqie~lp~~-issl~klr~lnvgm-nrl~~lprgfg-----------s~p~levldltynnl~e~~lp  120 (264)
T KOG0617|consen   55 LKNLEVLNLSN-NQIEELPTS-ISSLPKLRILNVGM-NRLNILPRGFG-----------SFPALEVLDLTYNNLNENSLP  120 (264)
T ss_pred             hhhhhhhhccc-chhhhcChh-hhhchhhhheecch-hhhhcCccccC-----------CCchhhhhhccccccccccCC
Confidence            34455555555 345555554 55555555555542 23433343332           36666666666554443  33


Q ss_pred             c-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCC
Q 009534          400 W-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPK  478 (532)
Q Consensus       400 ~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~  478 (532)
                      - +..+..|+-|++.+. ..+.+|.             .++.+++|+.|.+.+. .|-++|.+++.+..|+.|+|.+ .+
T Consensus       121 gnff~m~tlralyl~dn-dfe~lp~-------------dvg~lt~lqil~lrdn-dll~lpkeig~lt~lrelhiqg-nr  184 (264)
T KOG0617|consen  121 GNFFYMTTLRALYLGDN-DFEILPP-------------DVGKLTNLQILSLRDN-DLLSLPKEIGDLTRLRELHIQG-NR  184 (264)
T ss_pred             cchhHHHHHHHHHhcCC-CcccCCh-------------hhhhhcceeEEeeccC-chhhCcHHHHHHHHHHHHhccc-ce
Confidence            2 223444555555442 3455555             6777888888888774 5667888888888888888887 46


Q ss_pred             CCCCCCCC
Q 009534          479 LKKLPFDC  486 (532)
Q Consensus       479 L~~lp~~~  486 (532)
                      |..+|-..
T Consensus       185 l~vlppel  192 (264)
T KOG0617|consen  185 LTVLPPEL  192 (264)
T ss_pred             eeecChhh
Confidence            77776543

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=98.49  E-value=1.2e-07  Score=96.57  Aligned_cols=119  Identities=18%  Similarity=0.264  Sum_probs=72.0

Q ss_pred             ccCCcc--cchhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeec
Q 009534          279 LSGGSL--VLVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMR  356 (532)
Q Consensus       279 LS~g~L--v~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~  356 (532)
                      ||+..|  +.++++.+|++|+.+++.-.   .+..+|......++   |+.|+|.+ +.+.++....+..++.|+.|+++
T Consensus        85 lsnNkl~~id~~~f~nl~nLq~v~l~~N---~Lt~IP~f~~~sgh---l~~L~L~~-N~I~sv~se~L~~l~alrslDLS  157 (873)
T KOG4194|consen   85 LSNNKLSHIDFEFFYNLPNLQEVNLNKN---ELTRIPRFGHESGH---LEKLDLRH-NLISSVTSEELSALPALRSLDLS  157 (873)
T ss_pred             ccccccccCcHHHHhcCCcceeeeeccc---hhhhcccccccccc---eeEEeeec-cccccccHHHHHhHhhhhhhhhh
Confidence            566666  68888999999999986522   34445544444444   55555555 22444443334444444444444


Q ss_pred             cc-----------------------cCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceee
Q 009534          357 YC-----------------------KDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQ  411 (532)
Q Consensus       357 ~c-----------------------~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~  411 (532)
                      .-                       ..+..+..+.          ..+|.+|..|.+++|.++.+|.  +..||+|+.|+
T Consensus       158 rN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~----------F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~Ld  227 (873)
T KOG4194|consen  158 RNLISEIPKPSFPAKVNIKKLNLASNRITTLETGH----------FDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLD  227 (873)
T ss_pred             hchhhcccCCCCCCCCCceEEeecccccccccccc----------ccccchheeeecccCcccccCHHHhhhcchhhhhh
Confidence            31                       2333333322          2357788888888888888875  56688888888


Q ss_pred             ecc
Q 009534          412 MYD  414 (532)
Q Consensus       412 l~~  414 (532)
                      +..
T Consensus       228 Lnr  230 (873)
T KOG4194|consen  228 LNR  230 (873)
T ss_pred             ccc
Confidence            854

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.39  E-value=1.1e-06  Score=88.33  Aligned_cols=32  Identities=22%  Similarity=0.323  Sum_probs=17.4

Q ss_pred             cccceeeccccccccccCCCCcCCCCccEEeecCC
Q 009534          442 ARLERLSLGGLENLRSIYPRALPFPHLKELHVTLC  476 (532)
Q Consensus       442 ~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C  476 (532)
                      ++|++|.+.+|..+. +|..+.  ++|+.|.+..+
T Consensus       156 sSLk~L~Is~c~~i~-LP~~LP--~SLk~L~ls~n  187 (426)
T PRK15386        156 PSLKTLSLTGCSNII-LPEKLP--ESLQSITLHIE  187 (426)
T ss_pred             CcccEEEecCCCccc-Cccccc--ccCcEEEeccc
Confidence            467777777666442 332211  46677776553

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=98.34  E-value=6e-08  Score=84.05  Aligned_cols=137  Identities=20%  Similarity=0.299  Sum_probs=109.5

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      ++++..|.+++ +.+..+|.. +..+.+|+.|++++ ..++++|....           +++.|+.|++.-++|..+|. 
T Consensus        32 ~s~ITrLtLSH-NKl~~vppn-ia~l~nlevln~~n-nqie~lp~~is-----------sl~klr~lnvgmnrl~~lprg   97 (264)
T KOG0617|consen   32 MSNITRLTLSH-NKLTVVPPN-IAELKNLEVLNLSN-NQIEELPTSIS-----------SLPKLRILNVGMNRLNILPRG   97 (264)
T ss_pred             hhhhhhhhccc-CceeecCCc-HHHhhhhhhhhccc-chhhhcChhhh-----------hchhhhheecchhhhhcCccc
Confidence            46688899988 458888865 88999999999988 47888887654           49999999998778888887 


Q ss_pred             hhcCCCcceeeeccccccc-cccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCC
Q 009534          401 LILAPNLKLIQMYDCRCLE-EIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKL  479 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~-~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L  479 (532)
                      ++.+|-|+.|++++.+--+ .+|.             .+..++.|+.|.+.+ ..++.+|..++.+..|+.|.+++. .|
T Consensus        98 fgs~p~levldltynnl~e~~lpg-------------nff~m~tlralyl~d-ndfe~lp~dvg~lt~lqil~lrdn-dl  162 (264)
T KOG0617|consen   98 FGSFPALEVLDLTYNNLNENSLPG-------------NFFYMTTLRALYLGD-NDFEILPPDVGKLTNLQILSLRDN-DL  162 (264)
T ss_pred             cCCCchhhhhhccccccccccCCc-------------chhHHHHHHHHHhcC-CCcccCChhhhhhcceeEEeeccC-ch
Confidence            8999999999998654322 2333             677788999999988 467889999999999999999884 55


Q ss_pred             CCCCCCCC
Q 009534          480 KKLPFDCT  487 (532)
Q Consensus       480 ~~lp~~~~  487 (532)
                      -++|....
T Consensus       163 l~lpkeig  170 (264)
T KOG0617|consen  163 LSLPKEIG  170 (264)
T ss_pred             hhCcHHHH
Confidence            67776443

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.25  E-value=3.1e-06  Score=85.27  Aligned_cols=68  Identities=16%  Similarity=0.378  Sum_probs=39.1

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC-ccccCCch
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRHVTWL  401 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~l~~l  401 (532)
                      .+++.|++++| .++.+|.  ++  ++|+.|.+++|.+++.+|...             .++|++|++++| ++..+|  
T Consensus        52 ~~l~~L~Is~c-~L~sLP~--LP--~sLtsL~Lsnc~nLtsLP~~L-------------P~nLe~L~Ls~Cs~L~sLP--  111 (426)
T PRK15386         52 RASGRLYIKDC-DIESLPV--LP--NELTEITIENCNNLTTLPGSI-------------PEGLEKLTVCHCPEISGLP--  111 (426)
T ss_pred             cCCCEEEeCCC-CCcccCC--CC--CCCcEEEccCCCCcccCCchh-------------hhhhhheEccCcccccccc--
Confidence            44666666666 4666652  33  256666776666666554311             246667777766 665554  


Q ss_pred             hcCCCcceeeec
Q 009534          402 ILAPNLKLIQMY  413 (532)
Q Consensus       402 ~~l~~L~~L~l~  413 (532)
                         ++|+.|.+.
T Consensus       112 ---~sLe~L~L~  120 (426)
T PRK15386        112 ---ESVRSLEIK  120 (426)
T ss_pred             ---cccceEEeC
Confidence               345555553

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.23  E-value=1.4e-05  Score=82.65  Aligned_cols=109  Identities=19%  Similarity=0.160  Sum_probs=76.7

Q ss_pred             CCcccccHHHHHHHHHHhcc----CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHH
Q 009534          146 PPTVVGLQSTLDRVWRCLTE----EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIA  221 (532)
Q Consensus       146 ~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~  221 (532)
                      ++.++||+++++++...+.+    .....+-|+|+.|+|||++++.++++. ......-..+++......+...++..|+
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l-~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEEL-EEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            36789999999999998743    345567899999999999999999987 3222223455666666667888999999


Q ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHhcCC-cEEEe
Q 009534          222 KKIGLCNESWDSKSFDEKAQEIFKTMRNT-KFLIS  255 (532)
Q Consensus       222 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~k-r~LlV  255 (532)
                      .++..........+..+....+.+.+..+ +.++|
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~vi  142 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIV  142 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEE
Confidence            99875221113345667777777777543 33433

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=98.22  E-value=5.5e-07  Score=91.96  Aligned_cols=133  Identities=20%  Similarity=0.252  Sum_probs=82.9

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeee-cccCCccccccccCCCCCccEEEEeCCccccCCc
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI-DYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~-~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~  400 (532)
                      |.++++|+|.. +++..+....+-+++.|+.|++++- .++.+.. .|..           .++|+.|++++|.++.++.
T Consensus       268 l~kme~l~L~~-N~l~~vn~g~lfgLt~L~~L~lS~N-aI~rih~d~Wsf-----------tqkL~~LdLs~N~i~~l~~  334 (873)
T KOG4194|consen  268 LEKMEHLNLET-NRLQAVNEGWLFGLTSLEQLDLSYN-AIQRIHIDSWSF-----------TQKLKELDLSSNRITRLDE  334 (873)
T ss_pred             ecccceeeccc-chhhhhhcccccccchhhhhccchh-hhheeecchhhh-----------cccceeEeccccccccCCh
Confidence            56677777776 4466666666677788888887763 4554533 3432           5666666666666666543


Q ss_pred             --hhcCCCcceeeeccc-----------------------cccccccccccccCcCcccCcccccccccceeeccccccc
Q 009534          401 --LILAPNLKLIQMYDC-----------------------RCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENL  455 (532)
Q Consensus       401 --l~~l~~L~~L~l~~c-----------------------~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L  455 (532)
                        +..|.+|++|.++..                       +.+.-.++.         ....+.++++|+.|.+.+ .++
T Consensus       335 ~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IED---------aa~~f~gl~~LrkL~l~g-Nql  404 (873)
T KOG4194|consen  335 GSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIED---------AAVAFNGLPSLRKLRLTG-NQL  404 (873)
T ss_pred             hHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEec---------chhhhccchhhhheeecC-cee
Confidence              334444444444321                       112111110         112566799999999998 589


Q ss_pred             cccCCCC-cCCCCccEEeecCCC
Q 009534          456 RSIYPRA-LPFPHLKELHVTLCP  477 (532)
Q Consensus       456 ~~i~~~~-~~~p~L~~L~i~~C~  477 (532)
                      ++|+... ..++.|+.|++.+.+
T Consensus       405 k~I~krAfsgl~~LE~LdL~~Na  427 (873)
T KOG4194|consen  405 KSIPKRAFSGLEALEHLDLGDNA  427 (873)
T ss_pred             eecchhhhccCcccceecCCCCc
Confidence            9999844 468999999998855

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.21  E-value=6.4e-08  Score=90.95  Aligned_cols=133  Identities=24%  Similarity=0.300  Sum_probs=97.7

Q ss_pred             cCCCeEEEecCCCCCcccccc-ccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC--cccc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLT-LASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS--KLRH--  397 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~-l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c--~L~~--  397 (532)
                      .+|+.|+|+.|.+++...... +.+++.|..|+++.|.--.....-...         .-=++|+.|+|+||  ++..  
T Consensus       234 ~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~---------hise~l~~LNlsG~rrnl~~sh  304 (419)
T KOG2120|consen  234 SNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVA---------HISETLTQLNLSGYRRNLQKSH  304 (419)
T ss_pred             ccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHh---------hhchhhhhhhhhhhHhhhhhhH
Confidence            459999999999998876554 478899999999988544322100000         01258999999999  4433  


Q ss_pred             CCc-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC---CCcCCCCccEEee
Q 009534          398 VTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP---RALPFPHLKELHV  473 (532)
Q Consensus       398 l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~---~~~~~p~L~~L~i  473 (532)
                      +.. ...+|+|..|++++|..+..-..            +.+..|+.|++|.++.|..+  +|.   ...+.|+|.+|++
T Consensus       305 ~~tL~~rcp~l~~LDLSD~v~l~~~~~------------~~~~kf~~L~~lSlsRCY~i--~p~~~~~l~s~psl~yLdv  370 (419)
T KOG2120|consen  305 LSTLVRRCPNLVHLDLSDSVMLKNDCF------------QEFFKFNYLQHLSLSRCYDI--IPETLLELNSKPSLVYLDV  370 (419)
T ss_pred             HHHHHHhCCceeeeccccccccCchHH------------HHHHhcchheeeehhhhcCC--ChHHeeeeccCcceEEEEe
Confidence            333 45799999999999988765333            36777999999999999865  232   5678999999999


Q ss_pred             cCCCC
Q 009534          474 TLCPK  478 (532)
Q Consensus       474 ~~C~~  478 (532)
                      .+|-.
T Consensus       371 ~g~vs  375 (419)
T KOG2120|consen  371 FGCVS  375 (419)
T ss_pred             ccccC
Confidence            99753

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.12  E-value=2.8e-06  Score=93.40  Aligned_cols=20  Identities=20%  Similarity=0.295  Sum_probs=12.1

Q ss_pred             CCCHHHHHHHHHHHhcCCcE
Q 009534          233 SKSFDEKAQEIFKTMRNTKF  252 (532)
Q Consensus       233 ~~~~~~~~~~l~~~L~~kr~  252 (532)
                      ..+.+.....++.++.++..
T Consensus       162 ~~~r~~a~~r~~~Cl~~~~~  181 (754)
T PRK15370        162 AANREEAVQRMRDCLKNNKT  181 (754)
T ss_pred             cccHHHHHHHHHhhcccCce
Confidence            44555666667777765443

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.11  E-value=2.5e-05  Score=79.88  Aligned_cols=101  Identities=14%  Similarity=0.152  Sum_probs=70.1

Q ss_pred             CcccccHHHHHHHHHHhcc----CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCC---CeEEEEEeCCCCCHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTE----EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF---DFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~v~~~~~~~~l~~~  219 (532)
                      +.++||++++++|..++.+    .....+-|+|++|+|||++++.++++..+.....   -..+|+......+...++..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            5789999999999999864    3456789999999999999999998762101111   13466766666677889999


Q ss_pred             HHHHhc---CCCCCCCCCCHHHHHHHHHHHhc
Q 009534          220 IAKKIG---LCNESWDSKSFDEKAQEIFKTMR  248 (532)
Q Consensus       220 i~~~l~---~~~~~~~~~~~~~~~~~l~~~L~  248 (532)
                      |+.++.   .... ....+..+....+.+.+.
T Consensus        95 i~~~l~~~~~~~~-~~~~~~~~~~~~l~~~l~  125 (365)
T TIGR02928        95 LANQLRGSGEEVP-TTGLSTSEVFRRLYKELN  125 (365)
T ss_pred             HHHHHhhcCCCCC-CCCCCHHHHHHHHHHHHH
Confidence            999884   2211 122344555566666663

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.

>PTZ00202 tuzin; Provisional

Probab=98.10  E-value=6.3e-05  Score=75.72  Aligned_cols=73  Identities=21%  Similarity=0.156  Sum_probs=57.8

Q ss_pred             CCcccccHHHHHHHHHHhccC---CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 009534          146 PPTVVGLQSTLDRVWRCLTEE---PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAK  222 (532)
Q Consensus       146 ~~~~vGr~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~  222 (532)
                      .+.|+||+.+...+...|.+.   ..+++.|.|+.|+|||||++.+....    .   ...++.-..  +..++++.|+.
T Consensus       261 ~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l----~---~~qL~vNpr--g~eElLr~LL~  331 (550)
T PTZ00202        261 IRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE----G---MPAVFVDVR--GTEDTLRSVVK  331 (550)
T ss_pred             ccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC----C---ceEEEECCC--CHHHHHHHHHH
Confidence            468999999999999988642   35689999999999999999999766    2   113332222  77999999999


Q ss_pred             HhcCC
Q 009534          223 KIGLC  227 (532)
Q Consensus       223 ~l~~~  227 (532)
                      +++.+
T Consensus       332 ALGV~  336 (550)
T PTZ00202        332 ALGVP  336 (550)
T ss_pred             HcCCC
Confidence            99974

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.07  E-value=1.4e-06  Score=78.23  Aligned_cols=122  Identities=21%  Similarity=0.295  Sum_probs=34.0

Q ss_pred             CCeEEEecCCCCCcccccccc-ccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-h-
Q 009534          325 TPSLSLTNCRSLSSLSVLTLA-SLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-L-  401 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~-~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l-  401 (532)
                      +++|+|+++. +..+..  +. .+.+|+.|+++++ .++.++.            ...+++|+.|++++|.++.+.. + 
T Consensus        21 ~~~L~L~~n~-I~~Ie~--L~~~l~~L~~L~Ls~N-~I~~l~~------------l~~L~~L~~L~L~~N~I~~i~~~l~   84 (175)
T PF14580_consen   21 LRELNLRGNQ-ISTIEN--LGATLDKLEVLDLSNN-QITKLEG------------LPGLPRLKTLDLSNNRISSISEGLD   84 (175)
T ss_dssp             ----------------S----TT-TT--EEE-TTS---S--TT----------------TT--EEE--SS---S-CHHHH
T ss_pred             cccccccccc-cccccc--hhhhhcCCCEEECCCC-CCccccC------------ccChhhhhhcccCCCCCCccccchH
Confidence            5566666533 443321  32 3456666666654 3443321            1235666666666666666542 2 


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC----CCcCCCCccEEeecC
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP----RALPFPHLKELHVTL  475 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~----~~~~~p~L~~L~i~~  475 (532)
                      ..+|+|++|++++ +++.++..           -..+..+|+|+.|++.+.|-- .-+.    -+..+|+|+.|+-..
T Consensus        85 ~~lp~L~~L~L~~-N~I~~l~~-----------l~~L~~l~~L~~L~L~~NPv~-~~~~YR~~vi~~lP~Lk~LD~~~  149 (175)
T PF14580_consen   85 KNLPNLQELYLSN-NKISDLNE-----------LEPLSSLPKLRVLSLEGNPVC-EKKNYRLFVIYKLPSLKVLDGQD  149 (175)
T ss_dssp             HH-TT--EEE-TT-S---SCCC-----------CGGGGG-TT--EEE-TT-GGG-GSTTHHHHHHHH-TT-SEETTEE
T ss_pred             HhCCcCCEEECcC-CcCCChHH-----------hHHHHcCCCcceeeccCCccc-chhhHHHHHHHHcChhheeCCEE
Confidence            2466666666653 22333322           124455666666666665532 2222    134466666665443

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.01  E-value=2.5e-05  Score=74.54  Aligned_cols=56  Identities=20%  Similarity=0.208  Sum_probs=47.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCC--CCHHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRD--LQLGKIQESIAKKI  224 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~--~~~~~l~~~i~~~l  224 (532)
                      .-..++|+|++|+|||||++.+|+.. .. .+|+.++|+.+.+.  +++.++++.+...+
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l-~~-~~fdv~~~v~vI~er~~ev~el~~~I~~~~   72 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAI-TK-NHPEVYLIVLLIDERPEEVTDMQRSVKGEV   72 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc-cc-ccCCeEEEEEEccCCCccHHHHHHHhccEE
Confidence            45789999999999999999999998 44 38999999997766  79999999984443

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.98  E-value=2e-05  Score=78.72  Aligned_cols=63  Identities=19%  Similarity=0.183  Sum_probs=50.4

Q ss_pred             HHHHhcc-CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC--CHHHHHHHHHHH
Q 009534          159 VWRCLTE-EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL--QLGKIQESIAKK  223 (532)
Q Consensus       159 l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~--~~~~l~~~i~~~  223 (532)
                      +++++.. +.-....|+|++|+||||||+.||+.. .. ++|+.++||.+.+..  .+.++++.|...
T Consensus       159 vID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I-~~-nhFDv~~~VvLIgER~~EVtdiqrsIlg~  224 (416)
T PRK09376        159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSI-TT-NHPEVHLIVLLIDERPEEVTDMQRSVKGE  224 (416)
T ss_pred             eeeeecccccCceEEEeCCCCCChhHHHHHHHHHH-Hh-hcCCeEEEEEEeCCchhHHHHHHHHhcCc
Confidence            3444432 245678899999999999999999998 43 489999999998877  888999988743

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=97.97  E-value=1.2e-05  Score=58.94  Aligned_cols=60  Identities=23%  Similarity=0.324  Sum_probs=40.1

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCc
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSK  394 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~  394 (532)
                      ++|++|++++| .++.+|...+..+++|+.|+|+++ .++.++.+...          .+++|++|++++|+
T Consensus         1 p~L~~L~l~~n-~l~~i~~~~f~~l~~L~~L~l~~N-~l~~i~~~~f~----------~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNN-KLTEIPPDSFSNLPNLETLDLSNN-NLTSIPPDAFS----------NLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSS-TESEECTTTTTTGTTESEEEETSS-SESEEETTTTT----------TSTTESEEEETSSS
T ss_pred             CcCcEEECCCC-CCCccCHHHHcCCCCCCEeEccCC-ccCccCHHHHc----------CCCCCCEEeCcCCc
Confidence            35777777775 577777666677777777777754 56666665544          57777777777663

...

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=97.92  E-value=2.6e-07  Score=90.31  Aligned_cols=136  Identities=19%  Similarity=0.245  Sum_probs=89.4

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchhcC
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILA  404 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l  404 (532)
                      |..|.+.+ +.++.+|...+ +|+.|+.|+..+ .-++.+|.+..           ++.+|..|++..+++..+|.+..+
T Consensus       162 l~~l~~~~-n~l~~l~~~~i-~m~~L~~ld~~~-N~L~tlP~~lg-----------~l~~L~~LyL~~Nki~~lPef~gc  227 (565)
T KOG0472|consen  162 LSKLDLEG-NKLKALPENHI-AMKRLKHLDCNS-NLLETLPPELG-----------GLESLELLYLRRNKIRFLPEFPGC  227 (565)
T ss_pred             HHHhhccc-cchhhCCHHHH-HHHHHHhcccch-hhhhcCChhhc-----------chhhhHHHHhhhcccccCCCCCcc
Confidence            45555555 33555555423 366666666544 24555655443           377777777777777777777777


Q ss_pred             CCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          405 PNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       405 ~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      ..|.+|++. -+.++.++.            +...++++|..|++.+ .++++.|.+++.+.+|+.|++++ ..+..+|.
T Consensus       228 s~L~Elh~g-~N~i~~lpa------------e~~~~L~~l~vLDLRd-Nklke~Pde~clLrsL~rLDlSN-N~is~Lp~  292 (565)
T KOG0472|consen  228 SLLKELHVG-ENQIEMLPA------------EHLKHLNSLLVLDLRD-NKLKEVPDEICLLRSLERLDLSN-NDISSLPY  292 (565)
T ss_pred             HHHHHHHhc-ccHHHhhHH------------HHhcccccceeeeccc-cccccCchHHHHhhhhhhhcccC-CccccCCc
Confidence            777777774 345666655            2344678888888877 46788888777788888888877 46777777


Q ss_pred             CCCCC
Q 009534          485 DCTSG  489 (532)
Q Consensus       485 ~~~~~  489 (532)
                      ...+.
T Consensus       293 sLgnl  297 (565)
T KOG0472|consen  293 SLGNL  297 (565)
T ss_pred             ccccc
Confidence            66655

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=97.91  E-value=1.4e-06  Score=93.62  Aligned_cols=89  Identities=19%  Similarity=0.252  Sum_probs=68.0

Q ss_pred             cccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccc
Q 009534          377 RETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLEN  454 (532)
Q Consensus       377 ~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~  454 (532)
                      +-+.+|.+|+.|++++|.|..+|.  +.+++.|++|++++ ++++.++.             ++..+++|++|..++ ..
T Consensus       377 p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSG-NkL~~Lp~-------------tva~~~~L~tL~ahs-N~  441 (1081)
T KOG0618|consen  377 PVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSG-NKLTTLPD-------------TVANLGRLHTLRAHS-NQ  441 (1081)
T ss_pred             hhhccccceeeeeecccccccCCHHHHhchHHhHHHhccc-chhhhhhH-------------HHHhhhhhHHHhhcC-Cc
Confidence            345578899999999999999986  78899999999987 45888876             677777888777765 35


Q ss_pred             ccccCCCCcCCCCccEEeecCCCCCCCC
Q 009534          455 LRSIYPRALPFPHLKELHVTLCPKLKKL  482 (532)
Q Consensus       455 L~~i~~~~~~~p~L~~L~i~~C~~L~~l  482 (532)
                      +.++| +...+|+|+.++++ |.+|..+
T Consensus       442 l~~fP-e~~~l~qL~~lDlS-~N~L~~~  467 (1081)
T KOG0618|consen  442 LLSFP-ELAQLPQLKVLDLS-CNNLSEV  467 (1081)
T ss_pred             eeech-hhhhcCcceEEecc-cchhhhh
Confidence            66777 56677778877775 4566553

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=97.90  E-value=7.5e-06  Score=73.56  Aligned_cols=108  Identities=17%  Similarity=0.256  Sum_probs=39.0

Q ss_pred             ccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccc
Q 009534          344 LASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIIS  423 (532)
Q Consensus       344 l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~  423 (532)
                      +.+..+++.|++.++ .++.+. +...          .+.+|+.|++++|.++.++-+..+++|++|++++ +.+.++..
T Consensus        15 ~~n~~~~~~L~L~~n-~I~~Ie-~L~~----------~l~~L~~L~Ls~N~I~~l~~l~~L~~L~~L~L~~-N~I~~i~~   81 (175)
T PF14580_consen   15 YNNPVKLRELNLRGN-QISTIE-NLGA----------TLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSN-NRISSISE   81 (175)
T ss_dssp             -----------------------S--T----------T-TT--EEE-TTS--S--TT----TT--EEE--S-S---S-CH
T ss_pred             ccccccccccccccc-cccccc-chhh----------hhcCCCEEECCCCCCccccCccChhhhhhcccCC-CCCCcccc
Confidence            445567899999986 455442 2221          4789999999999999998888999999999975 45777743


Q ss_pred             cccccCcCcccCccc-ccccccceeeccccccccccCC--CCcCCCCccEEeecCCCC
Q 009534          424 LEKLGEVPSEEMQNL-IPFARLERLSLGGLENLRSIYP--RALPFPHLKELHVTLCPK  478 (532)
Q Consensus       424 ~~~~~~~~~~~~~~~-~~~~~L~~L~l~~~~~L~~i~~--~~~~~p~L~~L~i~~C~~  478 (532)
                                   .+ ..+|+|+.|++.+. ++.++..  ....+|+|+.|++.+.|-
T Consensus        82 -------------~l~~~lp~L~~L~L~~N-~I~~l~~l~~L~~l~~L~~L~L~~NPv  125 (175)
T PF14580_consen   82 -------------GLDKNLPNLQELYLSNN-KISDLNELEPLSSLPKLRVLSLEGNPV  125 (175)
T ss_dssp             -------------HHHHH-TT--EEE-TTS----SCCCCGGGGG-TT--EEE-TT-GG
T ss_pred             -------------chHHhCCcCCEEECcCC-cCCChHHhHHHHcCCCcceeeccCCcc
Confidence                         33 35899999999873 4555533  345799999999998764

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=97.90  E-value=2.1e-05  Score=86.71  Aligned_cols=133  Identities=17%  Similarity=0.186  Sum_probs=97.3

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchhc
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLIL  403 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~  403 (532)
                      +|+.|+++++ .++.+|.. +.  ++|+.|+++++ .++.+|...             .++|+.|++++|.+..+|. ..
T Consensus       200 ~L~~L~Ls~N-~LtsLP~~-l~--~nL~~L~Ls~N-~LtsLP~~l-------------~~~L~~L~Ls~N~L~~LP~-~l  260 (754)
T PRK15370        200 QITTLILDNN-ELKSLPEN-LQ--GNIKTLYANSN-QLTSIPATL-------------PDTIQEMELSINRITELPE-RL  260 (754)
T ss_pred             CCcEEEecCC-CCCcCChh-hc--cCCCEEECCCC-ccccCChhh-------------hccccEEECcCCccCcCCh-hH
Confidence            4999999985 58888865 33  58999999986 577676522             3589999999998888874 23


Q ss_pred             CCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCC
Q 009534          404 APNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       404 l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      ..+|+.|+++ |+++..++.             .+  +++|+.|+++++ +|+.+|....  ++|+.|++++| +|..+|
T Consensus       261 ~s~L~~L~Ls-~N~L~~LP~-------------~l--~~sL~~L~Ls~N-~Lt~LP~~lp--~sL~~L~Ls~N-~Lt~LP  320 (754)
T PRK15370        261 PSALQSLDLF-HNKISCLPE-------------NL--PEELRYLSVYDN-SIRTLPAHLP--SGITHLNVQSN-SLTALP  320 (754)
T ss_pred             hCCCCEEECc-CCccCcccc-------------cc--CCCCcEEECCCC-ccccCcccch--hhHHHHHhcCC-ccccCC
Confidence            4689999996 566877765             44  368999999986 6888875432  57999999986 577777


Q ss_pred             CCCCCCCCceeE
Q 009534          484 FDCTSGHERKLI  495 (532)
Q Consensus       484 ~~~~~~l~~L~~  495 (532)
                      ......++.|.+
T Consensus       321 ~~l~~sL~~L~L  332 (754)
T PRK15370        321 ETLPPGLKTLEA  332 (754)
T ss_pred             ccccccceeccc
Confidence            644433344433

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=97.84  E-value=1.7e-05  Score=58.22  Aligned_cols=56  Identities=21%  Similarity=0.329  Sum_probs=26.5

Q ss_pred             cccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccc
Q 009534          349 HLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDC  415 (532)
Q Consensus       349 ~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c  415 (532)
                      +|+.|.+.+| .+..++.+...          .+++|++|++++|.++.++.  +..+++|++|++++|
T Consensus         2 ~L~~L~l~~n-~l~~i~~~~f~----------~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNN-KLTEIPPDSFS----------NLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSS-TESEECTTTTT----------TGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCC-CCCccCHHHHc----------CCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            4455555554 44444443333          44555555555444444432  444555555555443

...

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=97.77  E-value=0.00049  Score=67.05  Aligned_cols=59  Identities=20%  Similarity=0.303  Sum_probs=42.9

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCC
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCN  228 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~  228 (532)
                      ....++.|+|+.|+||||+++.+++.. .. ..+ ..+|+ +....+..+++..|...++.+.
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l-~~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~   99 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRL-DQ-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLET   99 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhc-CC-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCCC
Confidence            346689999999999999999999987 32 111 22333 3334577889999999887753

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.

>TIGR00767 rho transcription termination factor Rho

Probab=97.75  E-value=0.00014  Score=73.17  Aligned_cols=58  Identities=16%  Similarity=0.140  Sum_probs=48.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCC--CCHHHHHHHHHHHhcC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRD--LQLGKIQESIAKKIGL  226 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~--~~~~~l~~~i~~~l~~  226 (532)
                      .-..++|+|++|+|||||++.+++.. . .++|+..+||.+.+.  .++.++++.+...+-.
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I-~-~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vva  226 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAI-T-RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVA  226 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhh-c-ccCCceEEEEEEcCCCCccHHHHHHHhhceEEE
Confidence            45678999999999999999999998 3 348999999998865  7999999999665433

Members of this family differ in the specificity of RNA binding.

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=97.75  E-value=1.5e-05  Score=89.27  Aligned_cols=82  Identities=32%  Similarity=0.452  Sum_probs=68.8

Q ss_pred             CCCceecccc-hhhHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhchHHHHHHHHHH
Q 009534            1 MGNVCSAQFS-CDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQ-MRRLQQVQGWLSRV   78 (532)
Q Consensus         1 m~~~~~~~~~-~~~v~~kl~~~~~~~~~~~~~~~~~~~~L~~~l~~l~~~l~~v~~~i~~ae~~~-~~~~~~~~~Wl~~l   78 (532)
                      |++.+++++- ++.+++.....+.....++..+++++..|+..++.+.+...+....+...|..+ ...+.++..|+.++
T Consensus         1 ~~~~~s~~~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~~~~~~~~~e~~~~~~~~~e~~~~~~~v   80 (889)
T KOG4658|consen    1 MGACVSFGVEKLDQLLNRESECLDGKDNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDIIWLFLV   80 (889)
T ss_pred             CCeEEEEehhhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6777665553 678999999999999999999999999999999999999999888888777776 55578889999888


Q ss_pred             HHHH
Q 009534           79 QDVE   82 (532)
Q Consensus        79 r~~~   82 (532)
                      +...
T Consensus        81 ~~~~   84 (889)
T KOG4658|consen   81 EEIE   84 (889)
T ss_pred             HHHH
Confidence            7554

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.71  E-value=4.8e-05  Score=69.47  Aligned_cols=44  Identities=27%  Similarity=0.394  Sum_probs=32.7

Q ss_pred             ccccHHHHHHHHHHhc---cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          149 VVGLQSTLDRVWRCLT---EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       149 ~vGr~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |+||+++++++...+.   ....+.+-|+|..|+|||++.+.++...
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            7999999999999993   3467999999999999999999999988

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=97.70  E-value=9e-05  Score=81.50  Aligned_cols=153  Identities=24%  Similarity=0.249  Sum_probs=77.2

Q ss_pred             cCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccc
Q 009534          295 HLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVK  374 (532)
Q Consensus       295 ~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~  374 (532)
                      +|+.|.+...   .+..++..      +++|++|+++++ .++.+|.  +  .++|+.|++.++ .+..+|.        
T Consensus       223 ~L~~L~L~~N---~Lt~LP~l------p~~Lk~LdLs~N-~LtsLP~--l--p~sL~~L~Ls~N-~L~~Lp~--------  279 (788)
T PRK15387        223 HITTLVIPDN---NLTSLPAL------PPELRTLEVSGN-QLTSLPV--L--PPGLLELSIFSN-PLTHLPA--------  279 (788)
T ss_pred             CCCEEEccCC---cCCCCCCC------CCCCcEEEecCC-ccCcccC--c--ccccceeeccCC-chhhhhh--------
Confidence            6777774422   23333332      245888888885 5777764  2  257788888775 3554443        


Q ss_pred             cccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccC---cCcccCcccccc-cccceeecc
Q 009534          375 RIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGE---VPSEEMQNLIPF-ARLERLSLG  450 (532)
Q Consensus       375 ~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~---~~~~~~~~~~~~-~~L~~L~l~  450 (532)
                            .+.+|+.|++++|+++.+|.  .+++|+.|+++++ ++..++.....-.   .....-..+..+ ++|+.|+++
T Consensus       280 ------lp~~L~~L~Ls~N~Lt~LP~--~p~~L~~LdLS~N-~L~~Lp~lp~~L~~L~Ls~N~L~~LP~lp~~Lq~LdLS  350 (788)
T PRK15387        280 ------LPSGLCKLWIFGNQLTSLPV--LPPGLQELSVSDN-QLASLPALPSELCKLWAYNNQLTSLPTLPSGLQELSVS  350 (788)
T ss_pred             ------chhhcCEEECcCCccccccc--cccccceeECCCC-ccccCCCCcccccccccccCccccccccccccceEecC
Confidence                  13455566666665555553  2455666666553 3444332100000   000000001112 367888887


Q ss_pred             ccccccccCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          451 GLENLRSIYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       451 ~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      ++ +|+.+|..   .++|+.|+++++ +|..+|.
T Consensus       351 ~N-~Ls~LP~l---p~~L~~L~Ls~N-~L~~LP~  379 (788)
T PRK15387        351 DN-QLASLPTL---PSELYKLWAYNN-RLTSLPA  379 (788)
T ss_pred             CC-ccCCCCCC---Ccccceehhhcc-ccccCcc
Confidence            64 56666642   245666666553 4555554

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.65  E-value=0.00012  Score=62.72  Aligned_cols=83  Identities=19%  Similarity=0.266  Sum_probs=59.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCC---CCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTP---NNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~---~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l  243 (532)
                      +-+++.|+|..|+|||++++.+..+.. ..   ..-..++|+.+....+...+.+.|+..++....  ...+..+....+
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~--~~~~~~~l~~~~   79 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLN-AEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLK--SRQTSDELRSLL   79 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHH-HHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSS--STS-HHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhH-HhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCcccc--ccCCHHHHHHHH
Confidence            356889999999999999999998862 00   003456799988777999999999999998652  235677778888


Q ss_pred             HHHhcCCcE
Q 009534          244 FKTMRNTKF  252 (532)
Q Consensus       244 ~~~L~~kr~  252 (532)
                      .+.+...+.
T Consensus        80 ~~~l~~~~~   88 (131)
T PF13401_consen   80 IDALDRRRV   88 (131)
T ss_dssp             HHHHHHCTE
T ss_pred             HHHHHhcCC
Confidence            888877765

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=97.62  E-value=0.00016  Score=79.49  Aligned_cols=97  Identities=22%  Similarity=0.263  Sum_probs=72.6

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchhc
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLIL  403 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~  403 (532)
                      +|+.|.+.+ +.++.+|..    +++|++|+++++ .++.+|.              .+++|+.|++.+|.++.+|.  .
T Consensus       223 ~L~~L~L~~-N~Lt~LP~l----p~~Lk~LdLs~N-~LtsLP~--------------lp~sL~~L~Ls~N~L~~Lp~--l  280 (788)
T PRK15387        223 HITTLVIPD-NNLTSLPAL----PPELRTLEVSGN-QLTSLPV--------------LPPGLLELSIFSNPLTHLPA--L  280 (788)
T ss_pred             CCCEEEccC-CcCCCCCCC----CCCCcEEEecCC-ccCcccC--------------cccccceeeccCCchhhhhh--c
Confidence            499999998 458888752    478999999885 7776653              25789999999998888874  4


Q ss_pred             CCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC
Q 009534          404 APNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP  460 (532)
Q Consensus       404 l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~  460 (532)
                      +++|+.|+++++ +++.++.             .   +++|+.|+++++ ++..+|.
T Consensus       281 p~~L~~L~Ls~N-~Lt~LP~-------------~---p~~L~~LdLS~N-~L~~Lp~  319 (788)
T PRK15387        281 PSGLCKLWIFGN-QLTSLPV-------------L---PPGLQELSVSDN-QLASLPA  319 (788)
T ss_pred             hhhcCEEECcCC-ccccccc-------------c---ccccceeECCCC-ccccCCC
Confidence            578999999876 4666654             1   467888888875 5666654

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=97.60  E-value=1.3e-05  Score=80.07  Aligned_cols=14  Identities=36%  Similarity=0.458  Sum_probs=7.6

Q ss_pred             ccccccceeecccc
Q 009534          439 IPFARLERLSLGGL  452 (532)
Q Consensus       439 ~~~~~L~~L~l~~~  452 (532)
                      ..+++|++|++++|
T Consensus       218 ~~~~~L~~L~ls~n  231 (319)
T cd00116         218 ASLKSLEVLNLGDN  231 (319)
T ss_pred             cccCCCCEEecCCC
Confidence            33455566665554

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=97.60  E-value=8.7e-06  Score=87.68  Aligned_cols=108  Identities=25%  Similarity=0.358  Sum_probs=80.9

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL  401 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l  401 (532)
                      +.+|+.|++++ +.+.++|.+.+.++..|+.|++++ ..|+.+|.....           +..|++|...+|.+..+|-+
T Consensus       382 ~~hLKVLhLsy-NrL~~fpas~~~kle~LeeL~LSG-NkL~~Lp~tva~-----------~~~L~tL~ahsN~l~~fPe~  448 (1081)
T KOG0618|consen  382 FKHLKVLHLSY-NRLNSFPASKLRKLEELEELNLSG-NKLTTLPDTVAN-----------LGRLHTLRAHSNQLLSFPEL  448 (1081)
T ss_pred             ccceeeeeecc-cccccCCHHHHhchHHhHHHhccc-chhhhhhHHHHh-----------hhhhHHHhhcCCceeechhh
Confidence            66788888888 458888887778888888888887 478878765443           77888888877788888888


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccc
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENL  455 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L  455 (532)
                      ..+++|+.++| .|+++.++...            ....-|+|++|++++.+++
T Consensus       449 ~~l~qL~~lDl-S~N~L~~~~l~------------~~~p~p~LkyLdlSGN~~l  489 (1081)
T KOG0618|consen  449 AQLPQLKVLDL-SCNNLSEVTLP------------EALPSPNLKYLDLSGNTRL  489 (1081)
T ss_pred             hhcCcceEEec-ccchhhhhhhh------------hhCCCcccceeeccCCccc
Confidence            88888888888 57778777541            1111278888888887653

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

Probab=97.57  E-value=0.00038  Score=71.21  Aligned_cols=69  Identities=16%  Similarity=0.119  Sum_probs=57.6

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQE  218 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~  218 (532)
                      .++++.++..+.+...|..  .+-+.++|++|+|||++|+.+++.. .....|+.+.||++++.++..++..
T Consensus       175 ~d~~i~e~~le~l~~~L~~--~~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~  243 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--KKNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQ  243 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--CCCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhc
Confidence            3578889999999999875  3567779999999999999999988 4455788999999999888777664

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=97.54  E-value=2.8e-05  Score=77.21  Aligned_cols=85  Identities=16%  Similarity=0.247  Sum_probs=50.1

Q ss_pred             CCCCccEEEEeCCccccCC---chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccc
Q 009534          381 GFFSLHKVSIWGSKLRHVT---WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRS  457 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~l~---~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~  457 (532)
                      .++.|+.|+|+++.+..++   -.+.+|.|+.|.++.|. +.++-.-+.+.      ..-...||+|++|++... +.+.
T Consensus       244 i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tg-i~si~~~d~~s------~~kt~~f~kL~~L~i~~N-~I~~  315 (505)
T KOG3207|consen  244 ILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTG-IASIAEPDVES------LDKTHTFPKLEYLNISEN-NIRD  315 (505)
T ss_pred             hhhHHhhccccCCcccccccccccccccchhhhhccccC-cchhcCCCccc------hhhhcccccceeeecccC-cccc
Confidence            4677888888888555543   47778888888887664 44443211100      012355888888888764 3444


Q ss_pred             cCC--CCcCCCCccEEee
Q 009534          458 IYP--RALPFPHLKELHV  473 (532)
Q Consensus       458 i~~--~~~~~p~L~~L~i  473 (532)
                      |+.  ....+++|+.|.+
T Consensus       316 w~sl~~l~~l~nlk~l~~  333 (505)
T KOG3207|consen  316 WRSLNHLRTLENLKHLRI  333 (505)
T ss_pred             ccccchhhccchhhhhhc
Confidence            543  3334455555543

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=97.45  E-value=0.00011  Score=69.68  Aligned_cols=44  Identities=32%  Similarity=0.506  Sum_probs=37.9

Q ss_pred             ccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          149 VVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       149 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |+||++++++|.+++..+..+.+.|+|+.|+|||+|++.+.+..
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            68999999999999988778899999999999999999999987

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>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=97.39  E-value=0.00058  Score=59.20  Aligned_cols=59  Identities=29%  Similarity=0.333  Sum_probs=45.8

Q ss_pred             cccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC
Q 009534          150 VGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL  211 (532)
Q Consensus       150 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~  211 (532)
                      +|++..++.+...+.....+.+.|+|..|+|||++++.+++.. .  ..-..++++......
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~-~--~~~~~v~~~~~~~~~   59 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANEL-F--RPGAPFLYLNASDLL   59 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHh-h--cCCCCeEEEehhhhh
Confidence            4788889999999877677889999999999999999999987 2  222455666655433

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.

>PRK08118 topology modulation protein; Reviewed

Probab=97.34  E-value=0.00014  Score=65.28  Aligned_cols=35  Identities=34%  Similarity=0.699  Sum_probs=28.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCC-CCCCeEEE
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTP-NNFDFVIW  204 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~w  204 (532)
                      ..|.|+|++|+||||+|+.+++.. ... -+||...|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l-~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKL-NIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh-CCCceecchhhc
Confidence            358899999999999999999997 443 46787775

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=97.32  E-value=5.5e-05  Score=75.58  Aligned_cols=137  Identities=18%  Similarity=0.135  Sum_probs=80.1

Q ss_pred             cCCCeEEEecCCCCC-----ccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc
Q 009534          323 SNTPSLSLTNCRSLS-----SLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH  397 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~-----~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~  397 (532)
                      ++|+.|++++|. +.     .++. .+..+++|+.|++.+|. +..-....      .......+++|++|++++|.+..
T Consensus       137 ~~L~~L~L~~n~-l~~~~~~~~~~-~~~~~~~L~~L~l~~n~-l~~~~~~~------l~~~l~~~~~L~~L~L~~n~i~~  207 (319)
T cd00116         137 PALEKLVLGRNR-LEGASCEALAK-ALRANRDLKELNLANNG-IGDAGIRA------LAEGLKANCNLEVLDLNNNGLTD  207 (319)
T ss_pred             CCceEEEcCCCc-CCchHHHHHHH-HHHhCCCcCEEECcCCC-CchHHHHH------HHHHHHhCCCCCEEeccCCccCh
Confidence            568999999886 33     1221 24556789999998874 33100000      00011235799999999997654


Q ss_pred             CC------chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccc-----ccCCCCcCCC
Q 009534          398 VT------WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLR-----SIYPRALPFP  466 (532)
Q Consensus       398 l~------~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~-----~i~~~~~~~p  466 (532)
                      ..      .+..+++|++|++++|. +.......-..       ......++|++|++.+|. ++     .+......++
T Consensus       208 ~~~~~l~~~~~~~~~L~~L~ls~n~-l~~~~~~~l~~-------~~~~~~~~L~~L~l~~n~-i~~~~~~~l~~~~~~~~  278 (319)
T cd00116         208 EGASALAETLASLKSLEVLNLGDNN-LTDAGAAALAS-------ALLSPNISLLTLSLSCND-ITDDGAKDLAEVLAEKE  278 (319)
T ss_pred             HHHHHHHHHhcccCCCCEEecCCCc-CchHHHHHHHH-------HHhccCCCceEEEccCCC-CCcHHHHHHHHHHhcCC
Confidence            21      25567899999999875 33211100000       001124799999999873 32     2222344568


Q ss_pred             CccEEeecCCC
Q 009534          467 HLKELHVTLCP  477 (532)
Q Consensus       467 ~L~~L~i~~C~  477 (532)
                      .|+.++++++.
T Consensus       279 ~L~~l~l~~N~  289 (319)
T cd00116         279 SLLELDLRGNK  289 (319)
T ss_pred             CccEEECCCCC
Confidence            89999998853

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=97.29  E-value=3.8e-05  Score=72.69  Aligned_cols=32  Identities=19%  Similarity=0.366  Sum_probs=14.1

Q ss_pred             CCCccEEEEeCCccccC-CchhcCCCcceeeec
Q 009534          382 FFSLHKVSIWGSKLRHV-TWLILAPNLKLIQMY  413 (532)
Q Consensus       382 l~~L~~L~l~~c~L~~l-~~l~~l~~L~~L~l~  413 (532)
                      +++|+.|++++|.|.++ -|-.++.|.++|.+.
T Consensus       328 L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La  360 (490)
T KOG1259|consen  328 LPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLA  360 (490)
T ss_pred             cccceEeecccchhHhhhhhHhhhcCEeeeehh
Confidence            44444555544444332 233344444444443

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=97.25  E-value=2.3e-05  Score=76.98  Aligned_cols=110  Identities=16%  Similarity=0.202  Sum_probs=73.7

Q ss_pred             ccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccc
Q 009534          344 LASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIIS  423 (532)
Q Consensus       344 l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~  423 (532)
                      ++.+++|..|++++- -+.++|.+...           +..|+.|+|+.++++.+|-....+...++.+..-.++.+++.
T Consensus       431 l~~l~kLt~L~L~NN-~Ln~LP~e~~~-----------lv~Lq~LnlS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~  498 (565)
T KOG0472|consen  431 LSQLQKLTFLDLSNN-LLNDLPEEMGS-----------LVRLQTLNLSFNRFRMLPECLYELQTLETLLASNNQIGSVDP  498 (565)
T ss_pred             HHhhhcceeeecccc-hhhhcchhhhh-----------hhhhheecccccccccchHHHhhHHHHHHHHhccccccccCh
Confidence            556666666666652 45556665543           556777777766666666533333322222323344555554


Q ss_pred             cccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCC
Q 009534          424 LEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPK  478 (532)
Q Consensus       424 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~  478 (532)
                                  +.+..+.+|.+|++.+ ..+..+|+..++|.+|++|.+.|.|-
T Consensus       499 ------------~~l~nm~nL~tLDL~n-Ndlq~IPp~LgnmtnL~hLeL~gNpf  540 (565)
T KOG0472|consen  499 ------------SGLKNMRNLTTLDLQN-NDLQQIPPILGNMTNLRHLELDGNPF  540 (565)
T ss_pred             ------------HHhhhhhhcceeccCC-CchhhCChhhccccceeEEEecCCcc
Confidence                        3588899999999988 47889999999999999999999763

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

Probab=97.21  E-value=0.0033  Score=63.68  Aligned_cols=105  Identities=16%  Similarity=0.209  Sum_probs=78.6

Q ss_pred             CcccccHHHHHHHHHHhcc----CCceEEEEecCCCCcHHHHHHHHHHhccCCC-CCCCeEEEEEeCCCCCHHHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTE----EPVGIVGLYGMGGVGKTTLLTQINNSFLHTP-NNFDFVIWEVVSRDLQLGKIQESIA  221 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~v~~~~~~~~l~~~i~  221 (532)
                      +.+.+|+++++++...|..    ..+.-+-|+|..|+|||+.++.+..+. +.. ...+ +++|.+.......++...|+
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l-~~~~~~~~-~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEEL-EESSANVE-VVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHH-HhhhccCc-eEEEeeeeCCCHHHHHHHHH
Confidence            4589999999999988753    233448899999999999999999998 322 2222 78888888889999999999


Q ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHhcC-CcEEEe
Q 009534          222 KKIGLCNESWDSKSFDEKAQEIFKTMRN-TKFLIS  255 (532)
Q Consensus       222 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~-kr~LlV  255 (532)
                      +.++....  ...+..+....+.+.+.. ++.++|
T Consensus        95 ~~~~~~p~--~g~~~~~~~~~l~~~~~~~~~~~Iv  127 (366)
T COG1474          95 NKLGKVPL--TGDSSLEILKRLYDNLSKKGKTVIV  127 (366)
T ss_pred             HHcCCCCC--CCCchHHHHHHHHHHHHhcCCeEEE
Confidence            99973321  455666677777777755 344555

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=97.20  E-value=8.9e-05  Score=73.40  Aligned_cols=179  Identities=18%  Similarity=0.254  Sum_probs=95.2

Q ss_pred             CCeEEEecCCCCCccccccc-cccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC-ccccC--Cc
Q 009534          325 TPSLSLTNCRSLSSLSVLTL-ASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRHV--TW  400 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l-~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~l--~~  400 (532)
                      +-++++..|..++......+ ..+..|+.|..++|..+.+.+....+         .+.++|+.|.+.+| .++..  ..
T Consensus       270 i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg---------~~~~~L~~l~l~~c~~fsd~~ft~  340 (483)
T KOG4341|consen  270 ILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWALG---------QHCHNLQVLELSGCQQFSDRGFTM  340 (483)
T ss_pred             hhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHh---------cCCCceEEEeccccchhhhhhhhh
Confidence            34445555555554443222 23556666666666665554443332         24567777777777 66552  22


Q ss_pred             h-hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc-----CCCCcCCCCccEEeec
Q 009534          401 L-ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-----YPRALPFPHLKELHVT  474 (532)
Q Consensus       401 l-~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-----~~~~~~~p~L~~L~i~  474 (532)
                      + ...+.|+.+++.+|..+..-..           .+-..+.|.|+.|.++.|...+.-     .........|+.+.+.
T Consensus       341 l~rn~~~Le~l~~e~~~~~~d~tL-----------~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~  409 (483)
T KOG4341|consen  341 LGRNCPHLERLDLEECGLITDGTL-----------ASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELD  409 (483)
T ss_pred             hhcCChhhhhhcccccceehhhhH-----------hhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeec
Confidence            2 3466677777766655433211           013345677777777777655444     2233456667777777


Q ss_pred             CCCCCCCCCCCC---CCCCCceeEEecchhhhhhc-----ccCccccccccccCccc
Q 009534          475 LCPKLKKLPFDC---TSGHERKLIIKGQEEWWNNL-----QWDDQATQNAFLPYFKT  523 (532)
Q Consensus       475 ~C~~L~~lp~~~---~~~l~~L~~~~~~~~w~~~l-----~w~~~~~~~~~~~~~~~  523 (532)
                      +||.+..--...   ...++....++|..-..+..     .--...+..+|-|.-+|
T Consensus       410 n~p~i~d~~Le~l~~c~~Leri~l~~~q~vtk~~i~~~~~~lp~i~v~a~~a~~t~p  466 (483)
T KOG4341|consen  410 NCPLITDATLEHLSICRNLERIELIDCQDVTKEAISRFATHLPNIKVHAYFAPVTPP  466 (483)
T ss_pred             CCCCchHHHHHHHhhCcccceeeeechhhhhhhhhHHHHhhCccceehhhccCCCCc
Confidence            777665432211   11245566666654333222     13334566666666655

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.19  E-value=9.9e-05  Score=80.64  Aligned_cols=34  Identities=21%  Similarity=0.393  Sum_probs=19.4

Q ss_pred             CCCCccEEEEeCCccccCCchhcCCCcceeeecc
Q 009534          381 GFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYD  414 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~  414 (532)
                      +||||..|+|++++++.+.-++.|+||+.|.+.+
T Consensus       171 sFpNL~sLDIS~TnI~nl~GIS~LknLq~L~mrn  204 (699)
T KOG3665|consen  171 SFPNLRSLDISGTNISNLSGISRLKNLQVLSMRN  204 (699)
T ss_pred             ccCccceeecCCCCccCcHHHhccccHHHHhccC
Confidence            4566666666666555554455555655555543

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=97.17  E-value=6.3e-05  Score=74.80  Aligned_cols=162  Identities=18%  Similarity=0.198  Sum_probs=83.5

Q ss_pred             hcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccc-cccccccceeeccccCcceeeecc
Q 009534          290 LLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTL-ASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       290 l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l-~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      .+.+++++.|+++..-......+..   ...-|++|+.|+|+... +.....+.. ..+++|+.|.+++|. +..=.+.+
T Consensus       142 ~k~~~~v~~LdLS~NL~~nw~~v~~---i~eqLp~Le~LNls~Nr-l~~~~~s~~~~~l~~lK~L~l~~CG-ls~k~V~~  216 (505)
T KOG3207|consen  142 SKILPNVRDLDLSRNLFHNWFPVLK---IAEQLPSLENLNLSSNR-LSNFISSNTTLLLSHLKQLVLNSCG-LSWKDVQW  216 (505)
T ss_pred             hhhCCcceeecchhhhHHhHHHHHH---HHHhcccchhccccccc-ccCCccccchhhhhhhheEEeccCC-CCHHHHHH
Confidence            4556666666654222222222211   11124557777776632 222211111 245667777777773 22111111


Q ss_pred             cCCccccccccCCCCCccEEEEeCC-cccc-CCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccce
Q 009534          369 AGGEVKRIRETHGFFSLHKVSIWGS-KLRH-VTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLER  446 (532)
Q Consensus       369 ~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~-l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~  446 (532)
                      .         ...||+|+.|.+.+| .+.. -.....+..|++|+|++.+. .+...           ..-.+.||.|+.
T Consensus       217 ~---------~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~l-i~~~~-----------~~~~~~l~~L~~  275 (505)
T KOG3207|consen  217 I---------LLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNL-IDFDQ-----------GYKVGTLPGLNQ  275 (505)
T ss_pred             H---------HHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcc-ccccc-----------ccccccccchhh
Confidence            1         135777777777776 3322 11234456677777766443 23321           125677899998


Q ss_pred             eecccccccccc---CCC----CcCCCCccEEeecCCCC
Q 009534          447 LSLGGLENLRSI---YPR----ALPFPHLKELHVTLCPK  478 (532)
Q Consensus       447 L~l~~~~~L~~i---~~~----~~~~p~L~~L~i~~C~~  478 (532)
                      |+++.| .+.++   +.+    ...||+|+.|++...+-
T Consensus       276 Lnls~t-gi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I  313 (505)
T KOG3207|consen  276 LNLSST-GIASIAEPDVESLDKTHTFPKLEYLNISENNI  313 (505)
T ss_pred             hhcccc-CcchhcCCCccchhhhcccccceeeecccCcc
Confidence            888875 23333   221    24589999999887543

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=97.04  E-value=7.5e-05  Score=70.74  Aligned_cols=131  Identities=18%  Similarity=0.185  Sum_probs=94.6

Q ss_pred             hcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeeccc
Q 009534          290 LLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYA  369 (532)
Q Consensus       290 l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~  369 (532)
                      +...+.|.+++++..   .+..+-.+..+   .++++.|++++ +++..+..  +..+++|..|++++. .+..+ .+|.
T Consensus       280 ~dTWq~LtelDLS~N---~I~~iDESvKL---~Pkir~L~lS~-N~i~~v~n--La~L~~L~~LDLS~N-~Ls~~-~Gwh  348 (490)
T KOG1259|consen  280 ADTWQELTELDLSGN---LITQIDESVKL---APKLRRLILSQ-NRIRTVQN--LAELPQLQLLDLSGN-LLAEC-VGWH  348 (490)
T ss_pred             cchHhhhhhcccccc---chhhhhhhhhh---ccceeEEeccc-cceeeehh--hhhcccceEeecccc-hhHhh-hhhH
Confidence            344556677775533   23344444444   35599999998 44655543  778899999999884 45544 3454


Q ss_pred             CCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeec
Q 009534          370 GGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSL  449 (532)
Q Consensus       370 ~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l  449 (532)
                      .          .+-|+++|.+.+|.+..++-++++-+|+.|++++. +++.+..           -+.++++|.|+.+.+
T Consensus       349 ~----------KLGNIKtL~La~N~iE~LSGL~KLYSLvnLDl~~N-~Ie~lde-----------V~~IG~LPCLE~l~L  406 (490)
T KOG1259|consen  349 L----------KLGNIKTLKLAQNKIETLSGLRKLYSLVNLDLSSN-QIEELDE-----------VNHIGNLPCLETLRL  406 (490)
T ss_pred             h----------hhcCEeeeehhhhhHhhhhhhHhhhhheecccccc-chhhHHH-----------hcccccccHHHHHhh
Confidence            4          58899999999998888888999999999999763 4665543           357899999999999


Q ss_pred             cccc
Q 009534          450 GGLE  453 (532)
Q Consensus       450 ~~~~  453 (532)
                      .+.|
T Consensus       407 ~~NP  410 (490)
T KOG1259|consen  407 TGNP  410 (490)
T ss_pred             cCCC
Confidence            9876

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=96.99  E-value=0.0056  Score=67.04  Aligned_cols=100  Identities=13%  Similarity=0.081  Sum_probs=68.1

Q ss_pred             CCcccccHHHHHHHHHHhcc----C-CceEEEEecCCCCcHHHHHHHHHHhccCC---CCCCC--eEEEEEeCCCCCHHH
Q 009534          146 PPTVVGLQSTLDRVWRCLTE----E-PVGIVGLYGMGGVGKTTLLTQINNSFLHT---PNNFD--FVIWEVVSRDLQLGK  215 (532)
Q Consensus       146 ~~~~vGr~~~~~~l~~~L~~----~-~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~--~~~wv~v~~~~~~~~  215 (532)
                      ++.++||++++++|...|..    . ...++-|.|+.|+|||+.++.|.... ..   +....  .+++|......+...
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrEL-qeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLL-QHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHH-HHHHhhccCCCceEEEEeCCccCCHHH
Confidence            45678999999999998854    2 33577899999999999999998776 21   12222  245565556667888


Q ss_pred             HHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHh
Q 009534          216 IQESIAKKIGLCNESWDSKSFDEKAQEIFKTM  247 (532)
Q Consensus       216 l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L  247 (532)
                      +...|..++...... ...+..+....+...+
T Consensus       833 IYqvI~qqL~g~~P~-~GlsS~evLerLF~~L  863 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPP-NALNSFKILDRLFNQN  863 (1164)
T ss_pred             HHHHHHHHHcCCCCC-ccccHHHHHHHHHhhh
Confidence            899999888543321 2333444555566555

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=96.98  E-value=0.00084  Score=66.79  Aligned_cols=46  Identities=28%  Similarity=0.433  Sum_probs=39.3

Q ss_pred             CcccccHHHHHHHHHHhcc-----CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-----EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+|+++.++.+..++..     .....+-++|+.|+|||+||+.+.+..
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~   54 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM   54 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999888862     345567899999999999999999887

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.

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=96.90  E-value=0.00096  Score=45.09  Aligned_cols=39  Identities=15%  Similarity=0.282  Sum_probs=28.0

Q ss_pred             CCccEEEEeCCccccCCc-hhcCCCcceeeecccccccccc
Q 009534          383 FSLHKVSIWGSKLRHVTW-LILAPNLKLIQMYDCRCLEEII  422 (532)
Q Consensus       383 ~~L~~L~l~~c~L~~l~~-l~~l~~L~~L~l~~c~~l~~i~  422 (532)
                      ++|++|++++|+++.+|. +..+++|+.|++++++ +.+++
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~-i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNP-ISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSC-CSBEG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCC-CCCCc
Confidence            467888888888888877 8888888888887764 55553

...

>PF05729 NACHT: NACHT domain

Probab=96.90  E-value=0.0038  Score=55.56  Aligned_cols=55  Identities=15%  Similarity=0.298  Sum_probs=36.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCC----CCeEEEEEeCCCCCHH---HHHHHHHHHh
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNN----FDFVIWEVVSRDLQLG---KIQESIAKKI  224 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~v~~~~~~~---~l~~~i~~~l  224 (532)
                      |++.|+|.+|+||||+++.+..+. .....    +...+|+.........   .+...|..+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~   62 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQL-AEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQL   62 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHH-HhcCcccccceEEEEEeehhhhhccccchHHHHHHHhh
Confidence            578999999999999999999888 33332    3456666655433322   3444444444

>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=96.89  E-value=0.0013  Score=60.79  Aligned_cols=46  Identities=26%  Similarity=0.356  Sum_probs=32.4

Q ss_pred             CcccccHHHHHHHHHHhc-----cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT-----EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|||.++-++.+.-++.     .+...-+-.||++|+||||||..+.+..
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~   74 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL   74 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc
Confidence            468999877776544432     2346678899999999999999999988

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.

>PLN03150 hypothetical protein; Provisional

Probab=96.88  E-value=0.0013  Score=71.97  Aligned_cols=91  Identities=16%  Similarity=0.145  Sum_probs=59.8

Q ss_pred             CCCCCccEEEEeCCccc-cCCc-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccc
Q 009534          380 HGFFSLHKVSIWGSKLR-HVTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRS  457 (532)
Q Consensus       380 ~~l~~L~~L~l~~c~L~-~l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~  457 (532)
                      ..+++|+.|+|++|.+. .+|. ++.+++|+.|+++++.-...++.             .+..+++|+.|+|+++.--..
T Consensus       439 ~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~-------------~l~~L~~L~~L~Ls~N~l~g~  505 (623)
T PLN03150        439 SKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPE-------------SLGQLTSLRILNLNGNSLSGR  505 (623)
T ss_pred             hCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCch-------------HHhcCCCCCEEECcCCccccc
Confidence            35778888888888665 3653 77788888888877653334544             677778888888877654446


Q ss_pred             cCCCCcC-CCCccEEeecCCCCCCCCC
Q 009534          458 IYPRALP-FPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       458 i~~~~~~-~p~L~~L~i~~C~~L~~lp  483 (532)
                      +|..+.. +.++..+.+.+++.+...|
T Consensus       506 iP~~l~~~~~~~~~l~~~~N~~lc~~p  532 (623)
T PLN03150        506 VPAALGGRLLHRASFNFTDNAGLCGIP  532 (623)
T ss_pred             CChHHhhccccCceEEecCCccccCCC
Confidence            6654433 2456677777766655544

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

Probab=96.84  E-value=0.016  Score=61.75  Aligned_cols=63  Identities=19%  Similarity=0.261  Sum_probs=47.9

Q ss_pred             CcccccHHHHHHHHHHhccC------CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTEE------PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGK  215 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~  215 (532)
                      .+-+|+++-+++|++++.-+      +-+++..+|++|||||++|+.|....   ...|..   ++|+...|..+
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL---nRkFfR---fSvGG~tDvAe  479 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL---NRKFFR---FSVGGMTDVAE  479 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh---CCceEE---EeccccccHHh
Confidence            46699999999999998532      67899999999999999999999988   344432   33444444433

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=96.83  E-value=0.0002  Score=73.52  Aligned_cols=142  Identities=17%  Similarity=0.148  Sum_probs=86.0

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-hhc
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LIL  403 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~~  403 (532)
                      |..|+|+. +.+..+|.. +..|+ |+.|.+.+ .++..+|....           .++.|..|+.+.|.+..+|. ++.
T Consensus       123 lt~l~ls~-NqlS~lp~~-lC~lp-Lkvli~sN-Nkl~~lp~~ig-----------~~~tl~~ld~s~nei~slpsql~~  187 (722)
T KOG0532|consen  123 LTFLDLSS-NQLSHLPDG-LCDLP-LKVLIVSN-NKLTSLPEEIG-----------LLPTLAHLDVSKNEIQSLPSQLGY  187 (722)
T ss_pred             HHHhhhcc-chhhcCChh-hhcCc-ceeEEEec-CccccCCcccc-----------cchhHHHhhhhhhhhhhchHHhhh
Confidence            56666665 345666554 43333 66666655 35666655443           26677777777776666655 666


Q ss_pred             CCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCC
Q 009534          404 APNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       404 l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      +.+|+.|.+.. +.+..++.             .+. --.|..|+++ |.++..||.++..+..|++|.+.+. -|++-|
T Consensus       188 l~slr~l~vrR-n~l~~lp~-------------El~-~LpLi~lDfS-cNkis~iPv~fr~m~~Lq~l~LenN-PLqSPP  250 (722)
T KOG0532|consen  188 LTSLRDLNVRR-NHLEDLPE-------------ELC-SLPLIRLDFS-CNKISYLPVDFRKMRHLQVLQLENN-PLQSPP  250 (722)
T ss_pred             HHHHHHHHHhh-hhhhhCCH-------------HHh-CCceeeeecc-cCceeecchhhhhhhhheeeeeccC-CCCCCh
Confidence            77777777754 34566665             343 2356677766 4677788887777888888887653 466666


Q ss_pred             CCC-----CCCCCceeEEec
Q 009534          484 FDC-----TSGHERKLIIKG  498 (532)
Q Consensus       484 ~~~-----~~~l~~L~~~~~  498 (532)
                      ...     .+..+.|.+..|
T Consensus       251 AqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  251 AQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             HHHHhccceeeeeeecchhc
Confidence            532     222455555555

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

Probab=96.75  E-value=0.02  Score=61.14  Aligned_cols=46  Identities=30%  Similarity=0.402  Sum_probs=40.5

Q ss_pred             CcccccHHHHHHHHHHhcc----C--CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE----E--PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~----~--~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+-+|.++-+++|++.|.-    +  +-.++..+|++|||||+|++.|....
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al  374 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL  374 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh
Confidence            4569999999999999852    2  45799999999999999999999988

>PRK13342 recombination factor protein RarA; Reviewed

Probab=96.72  E-value=0.0028  Score=65.81  Aligned_cols=46  Identities=30%  Similarity=0.383  Sum_probs=39.3

Q ss_pred             CcccccHHHHHH---HHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDR---VWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~---l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++||.+..+..   +.+++..+....+-++|++|+||||+|+.+.+..
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~   60 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT   60 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            458998887666   8888877777788899999999999999999876

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=96.67  E-value=0.0004  Score=68.87  Aligned_cols=145  Identities=12%  Similarity=0.231  Sum_probs=97.6

Q ss_pred             cCCCeEEEecCCCCCccccccc-cccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC-cccc--C
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTL-ASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRH--V  398 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l-~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~--l  398 (532)
                      ..|+.|+.++|..+...+...+ .+.++|+.|.+.+|..+.+......+         .+.+.|+.+++.+| ....  +
T Consensus       294 ~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~---------rn~~~Le~l~~e~~~~~~d~tL  364 (483)
T KOG4341|consen  294 HALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLG---------RNCPHLERLDLEECGLITDGTL  364 (483)
T ss_pred             hHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhh---------cCChhhhhhcccccceehhhhH
Confidence            5588999999988877766555 46789999999999876655333222         35788899999988 4433  2


Q ss_pred             -CchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC-CCcCCCCccEEeecCC
Q 009534          399 -TWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP-RALPFPHLKELHVTLC  476 (532)
Q Consensus       399 -~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~L~~L~i~~C  476 (532)
                       ..-.++|.|+.|.++.|..+..-.-..-        .........|..+.+.+||.+..-.- ....++.|+.+++.+|
T Consensus       365 ~sls~~C~~lr~lslshce~itD~gi~~l--------~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~  436 (483)
T KOG4341|consen  365 ASLSRNCPRLRVLSLSHCELITDEGIRHL--------SSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDC  436 (483)
T ss_pred             hhhccCCchhccCChhhhhhhhhhhhhhh--------hhccccccccceeeecCCCCchHHHHHHHhhCcccceeeeech
Confidence             1135688899999988876554411000        01234467788888889887654322 3456888898988888


Q ss_pred             CCCCCCCC
Q 009534          477 PKLKKLPF  484 (532)
Q Consensus       477 ~~L~~lp~  484 (532)
                      ....+=|.
T Consensus       437 q~vtk~~i  444 (483)
T KOG4341|consen  437 QDVTKEAI  444 (483)
T ss_pred             hhhhhhhh
Confidence            87765443

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.67  E-value=0.0024  Score=63.71  Aligned_cols=46  Identities=22%  Similarity=0.387  Sum_probs=40.8

Q ss_pred             CcccccHHHHHHHHHHhcc------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++++++++..      ...+++.++|+.|+||||+|+.+.+..
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3789999999999999864      256899999999999999999998887

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

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=96.65  E-value=0.033  Score=60.74  Aligned_cols=61  Identities=20%  Similarity=0.187  Sum_probs=46.6

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCC---CeEEEEEeC
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF---DFVIWEVVS  208 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~v~  208 (532)
                      ++++|.+..++.+.+.+.......+.|+|+.|+||||+|+.+++.. .....+   ...-|+.+.
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~-~~~~~~~~~~~~~fv~i~  217 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA-KKLKHTPFAEDAPFVEVD  217 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh-hhccCCcccCCCCeEEEe
Confidence            3579999999999888876667789999999999999999998876 333333   133566553

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=96.61  E-value=0.0024  Score=64.24  Aligned_cols=46  Identities=30%  Similarity=0.427  Sum_probs=39.0

Q ss_pred             CcccccHHHHHHHHHHhcc-----CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-----EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+|+++.++.+..++..     .....+-|+|+.|+|||++|+.+.+..
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l   75 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM   75 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh
Confidence            5689999999998877752     245678899999999999999999987

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.60  E-value=0.1  Score=54.81  Aligned_cols=85  Identities=18%  Similarity=0.316  Sum_probs=45.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCC-CCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRD-LQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~-~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      ...+++|+|..|+||||++..+.... ..+.....+..++.... .....-+......++....  ...+...... ..+
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~l-a~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~--~a~d~~~L~~-aL~  424 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRF-AAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVH--EADSAESLLD-LLE  424 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCceEEEecccccccHHHHHHHhhcccCceeE--ecCcHHHHHH-HHH
Confidence            35899999999999999999988765 22222234555543221 1112222222223332211  1223333443 334


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      .+.+..++||
T Consensus       425 ~l~~~DLVLI  434 (559)
T PRK12727        425 RLRDYKLVLI  434 (559)
T ss_pred             HhccCCEEEe
Confidence            5677888888

>PLN03150 hypothetical protein; Provisional

Probab=96.58  E-value=0.0025  Score=69.69  Aligned_cols=91  Identities=16%  Similarity=0.068  Sum_probs=73.7

Q ss_pred             CccEEEEeCCcccc-CCc-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC
Q 009534          384 SLHKVSIWGSKLRH-VTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR  461 (532)
Q Consensus       384 ~L~~L~l~~c~L~~-l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~  461 (532)
                      .++.|+|.+|.+.. +|. ++.+++|+.|+++++.-...++.             .+..+++|+.|+|+++.--..+|..
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~-------------~~~~l~~L~~LdLs~N~lsg~iP~~  485 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPP-------------SLGSITSLEVLDLSYNSFNGSIPES  485 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCCh-------------HHhCCCCCCEEECCCCCCCCCCchH
Confidence            47889999997765 554 88899999999998764445655             7888999999999998655578888


Q ss_pred             CcCCCCccEEeecCCCCCCCCCCCCC
Q 009534          462 ALPFPHLKELHVTLCPKLKKLPFDCT  487 (532)
Q Consensus       462 ~~~~p~L~~L~i~~C~~L~~lp~~~~  487 (532)
                      .+.+++|+.|++++|.--..+|....
T Consensus       486 l~~L~~L~~L~Ls~N~l~g~iP~~l~  511 (623)
T PLN03150        486 LGQLTSLRILNLNGNSLSGRVPAALG  511 (623)
T ss_pred             HhcCCCCCEEECcCCcccccCChHHh
Confidence            88999999999999976668887544

>PRK07261 topology modulation protein; Provisional

Probab=96.58  E-value=0.0056  Score=55.22  Aligned_cols=35  Identities=23%  Similarity=0.563  Sum_probs=25.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhccCCC-CCCCeEEEE
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSFLHTP-NNFDFVIWE  205 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv  205 (532)
                      .|.|+|++|+||||||+.+.... ... -+.|...|-
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~-~~~~i~~D~~~~~   37 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY-NCPVLHLDTLHFQ   37 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh-CCCeEecCCEEec
Confidence            48899999999999999998765 222 144555553

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=96.53  E-value=0.0021  Score=54.11  Aligned_cols=23  Identities=26%  Similarity=0.499  Sum_probs=21.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|.|.|+.|+||||+|+.+.++.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999886

...

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=96.50  E-value=0.0046  Score=59.08  Aligned_cols=102  Identities=11%  Similarity=0.059  Sum_probs=75.4

Q ss_pred             cchhhHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHH
Q 009534            9 FSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEVPRL   88 (532)
Q Consensus         9 ~~~~~v~~kl~~~~~~~~~~~~~~~~~~~~L~~~l~~l~~~l~~v~~~i~~ae~~~~~~~~~~~~Wl~~lr~~~~d~ed~   88 (532)
                      +.++-+++++..+..+....+.-++.+++-++.+++.++.+|+.+      ++....+.+. ......++.+.||++|.+
T Consensus       296 GyVdFlL~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V------~ee~~nkh~~-~ed~a~~ii~kAyevEYV  368 (402)
T PF12061_consen  296 GYVDFLLKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHV------VEEPHNKHDT-NEDCATQIIRKAYEVEYV  368 (402)
T ss_pred             cHHHHHHhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHH------Hhccchhhhh-hhhHHHHHHHHHhheeee
Confidence            346778888888888888888889999999999999999999886      5665554434 899999999999999999


Q ss_pred             Hhc---cccCCCCCCchhhhchHHHHHHHHHHHH
Q 009534           89 SRK---INLGGFCSGNCVERYKDGKRVVELLKNV  119 (532)
Q Consensus        89 id~---~~~~~~~~~~~~~r~~i~~~i~~i~~~i  119 (532)
                      +|.   +..+.+|  ...+-+++...|..+++++
T Consensus       369 VDaCi~k~~P~Wc--l~~WL~dIieei~~ik~~i  400 (402)
T PF12061_consen  369 VDACISKSVPHWC--LERWLLDIIEEITCIKAKI  400 (402)
T ss_pred             eehhhcCCCcHHH--HHHHHHHHHHHHHHHHHHh
Confidence            998   1223333  2233345555555555554

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.44  E-value=0.061  Score=52.25  Aligned_cols=106  Identities=15%  Similarity=0.215  Sum_probs=71.6

Q ss_pred             CcccccH---HHHHHHHHHhccC---CceEEEEecCCCCcHHHHHHHHHHhccCCCCCC----CeEEEEEeCCCCCHHHH
Q 009534          147 PTVVGLQ---STLDRVWRCLTEE---PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF----DFVIWEVVSRDLQLGKI  216 (532)
Q Consensus       147 ~~~vGr~---~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F----~~~~wv~v~~~~~~~~l  216 (532)
                      +..+|-.   +-++++.+++...   ...-+-|+|..|.|||++++++...+ .....=    -.++.|.....++...+
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~h-p~~~d~~~~~~PVv~vq~P~~p~~~~~  112 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLH-PPQSDEDAERIPVVYVQMPPEPDERRF  112 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHC-CCCCCCCCccccEEEEecCCCCChHHH
Confidence            4556643   3344444445443   45668999999999999999998877 322111    14667778889999999


Q ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhc--CCcEEEe
Q 009534          217 QESIAKKIGLCNESWDSKSFDEKAQEIFKTMR--NTKFLIS  255 (532)
Q Consensus       217 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlV  255 (532)
                      ...|+.+++.+..  ...+...........++  +-|.|||
T Consensus       113 Y~~IL~~lgaP~~--~~~~~~~~~~~~~~llr~~~vrmLII  151 (302)
T PF05621_consen  113 YSAILEALGAPYR--PRDRVAKLEQQVLRLLRRLGVRMLII  151 (302)
T ss_pred             HHHHHHHhCcccC--CCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence            9999999998764  33344444444444553  5678888

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=96.40  E-value=0.027  Score=55.72  Aligned_cols=74  Identities=26%  Similarity=0.348  Sum_probs=63.5

Q ss_pred             CCcccccHHHHHHHHHHhccCCc---eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 009534          146 PPTVVGLQSTLDRVWRCLTEEPV---GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAK  222 (532)
Q Consensus       146 ~~~~vGr~~~~~~l~~~L~~~~~---~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~  222 (532)
                      ++.+.+|+.++..+..++.+...   ..+-|+|..|.|||.+.+.+++.. .     ...+|+++-..+....++..|+.
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~-n-----~~~vw~n~~ecft~~~lle~IL~   78 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL-N-----LENVWLNCVECFTYAILLEKILN   78 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc-C-----CcceeeehHHhccHHHHHHHHHH
Confidence            36789999999999999987543   445789999999999999999987 2     24689999999999999999999


Q ss_pred             Hhc
Q 009534          223 KIG  225 (532)
Q Consensus       223 ~l~  225 (532)
                      +..
T Consensus        79 ~~~   81 (438)
T KOG2543|consen   79 KSQ   81 (438)
T ss_pred             Hhc
Confidence            995

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=96.33  E-value=0.00029  Score=74.60  Aligned_cols=136  Identities=23%  Similarity=0.373  Sum_probs=62.4

Q ss_pred             cCCCeEEEecCCCCCcccccccc-ccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC-cccc--C
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLA-SLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRH--V  398 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~-~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~--l  398 (532)
                      .+|+.|++++|..++..-...+. .+++|+.|.+.+|..+.+-.....         ...+++|++|++++| .++.  +
T Consensus       243 ~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i---------~~~~~~L~~L~l~~c~~~~d~~l  313 (482)
T KOG1947|consen  243 RKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSI---------AERCPSLRELDLSGCHGLTDSGL  313 (482)
T ss_pred             CCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHHH---------HHhcCcccEEeeecCccchHHHH
Confidence            44556666655544444333232 245566666555554332211111         123555666666666 5433  1


Q ss_pred             C-chhcCCCcceeeecccc---ccccccccccccCcCcccCcccccc--cccceeeccccccccccCCCCcCCCCcc-EE
Q 009534          399 T-WLILAPNLKLIQMYDCR---CLEEIISLEKLGEVPSEEMQNLIPF--ARLERLSLGGLENLRSIYPRALPFPHLK-EL  471 (532)
Q Consensus       399 ~-~l~~l~~L~~L~l~~c~---~l~~i~~~~~~~~~~~~~~~~~~~~--~~L~~L~l~~~~~L~~i~~~~~~~p~L~-~L  471 (532)
                      . ....+++|+.|.+..+.   .++....            ......  -.+..+.+.+|++++.+........... .+
T Consensus       314 ~~~~~~c~~l~~l~~~~~~~c~~l~~~~l------------~~~~~~~~d~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~  381 (482)
T KOG1947|consen  314 EALLKNCPNLRELKLLSLNGCPSLTDLSL------------SGLLTLTSDDLAELILRSCPKLTDLSLSYCGISDLGLEL  381 (482)
T ss_pred             HHHHHhCcchhhhhhhhcCCCccHHHHHH------------HHhhccCchhHhHHHHhcCCCcchhhhhhhhccCcchHH
Confidence            1 13335555554443332   2332211            011111  1566677777777766643222222233 46


Q ss_pred             eecCCCCC
Q 009534          472 HVTLCPKL  479 (532)
Q Consensus       472 ~i~~C~~L  479 (532)
                      .+.+||+|
T Consensus       382 ~l~gc~~l  389 (482)
T KOG1947|consen  382 SLRGCPNL  389 (482)
T ss_pred             HhcCCccc
Confidence            66777777

>PRK06696 uridine kinase; Validated

Probab=96.28  E-value=0.0069  Score=57.22  Aligned_cols=41  Identities=15%  Similarity=0.178  Sum_probs=34.6

Q ss_pred             cHHHHHHHHHHhc---cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          152 LQSTLDRVWRCLT---EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       152 r~~~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.+-+++|.+.+.   .++..+|+|.|..|+||||+|+.+....
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            5666777777775   3478899999999999999999999877

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=96.27  E-value=0.00063  Score=70.05  Aligned_cols=154  Identities=18%  Similarity=0.211  Sum_probs=112.0

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      ..+.+.+|..|.+++++....   ..++...    |.--|+.|.+++ ++++.+|.. ++.++.|..|+.+.| ++.++|
T Consensus       113 ip~~i~~L~~lt~l~ls~Nql---S~lp~~l----C~lpLkvli~sN-Nkl~~lp~~-ig~~~tl~~ld~s~n-ei~slp  182 (722)
T KOG0532|consen  113 IPEAICNLEALTFLDLSSNQL---SHLPDGL----CDLPLKVLIVSN-NKLTSLPEE-IGLLPTLAHLDVSKN-EIQSLP  182 (722)
T ss_pred             cchhhhhhhHHHHhhhccchh---hcCChhh----hcCcceeEEEec-CccccCCcc-cccchhHHHhhhhhh-hhhhch
Confidence            455566677777777652222   2222211    334488999888 569999977 778889999999886 666677


Q ss_pred             ecccCCccccccccCCCCCccEEEEeCCccccCCc-hhcCCCcceeeeccccccccccccccccCcCcccCccccccccc
Q 009534          366 IDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARL  444 (532)
Q Consensus       366 ~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L  444 (532)
                      ....           .+.+|+.|+++.+++.++|. +..| .|..|++ .|+++..||-             .+..+..|
T Consensus       183 sql~-----------~l~slr~l~vrRn~l~~lp~El~~L-pLi~lDf-ScNkis~iPv-------------~fr~m~~L  236 (722)
T KOG0532|consen  183 SQLG-----------YLTSLRDLNVRRNHLEDLPEELCSL-PLIRLDF-SCNKISYLPV-------------DFRKMRHL  236 (722)
T ss_pred             HHhh-----------hHHHHHHHHHhhhhhhhCCHHHhCC-ceeeeec-ccCceeecch-------------hhhhhhhh
Confidence            7554           48999999999998888876 4433 4778888 5899999988             88999999


Q ss_pred             ceeeccccccccccCCC---CcCCCCccEEeecCC
Q 009534          445 ERLSLGGLENLRSIYPR---ALPFPHLKELHVTLC  476 (532)
Q Consensus       445 ~~L~l~~~~~L~~i~~~---~~~~p~L~~L~i~~C  476 (532)
                      ++|.|.+.| |++=|..   .+...=.++|.+.-|
T Consensus       237 q~l~LenNP-LqSPPAqIC~kGkVHIFKyL~~qA~  270 (722)
T KOG0532|consen  237 QVLQLENNP-LQSPPAQICEKGKVHIFKYLSTQAC  270 (722)
T ss_pred             eeeeeccCC-CCCChHHHHhccceeeeeeecchhc
Confidence            999999876 5554432   344555788888888

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

Probab=96.24  E-value=0.021  Score=55.26  Aligned_cols=75  Identities=15%  Similarity=0.131  Sum_probs=49.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCC--CCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTP--NNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      -++|-++|++|.|||+|.++++++. .++  +.|....-+.++.    ..+..+.+..        ..+-...+-++|.+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkL-SIR~~~~y~~~~liEins----hsLFSKWFsE--------SgKlV~kmF~kI~E  243 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKL-SIRTNDRYYKGQLIEINS----HSLFSKWFSE--------SGKLVAKMFQKIQE  243 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhh-eeeecCccccceEEEEeh----hHHHHHHHhh--------hhhHHHHHHHHHHH
Confidence            5888999999999999999999998 544  3444444454432    2333333221        23445666777788


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      .+.++..|+.
T Consensus       244 Lv~d~~~lVf  253 (423)
T KOG0744|consen  244 LVEDRGNLVF  253 (423)
T ss_pred             HHhCCCcEEE
Confidence            8888775554

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=96.24  E-value=0.0036  Score=64.67  Aligned_cols=78  Identities=22%  Similarity=0.350  Sum_probs=53.0

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch-h
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL-I  402 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l-~  402 (532)
                      +|+.|++++ ..+..+|.. +..+++|+.|.+.++ .+..++....           ..++|+.|+++++++..+|.. .
T Consensus       141 nL~~L~l~~-N~i~~l~~~-~~~l~~L~~L~l~~N-~l~~l~~~~~-----------~~~~L~~L~ls~N~i~~l~~~~~  206 (394)
T COG4886         141 NLKELDLSD-NKIESLPSP-LRNLPNLKNLDLSFN-DLSDLPKLLS-----------NLSNLNNLDLSGNKISDLPPEIE  206 (394)
T ss_pred             hcccccccc-cchhhhhhh-hhccccccccccCCc-hhhhhhhhhh-----------hhhhhhheeccCCccccCchhhh
Confidence            588888887 447777522 677888888888886 4555554321           367788888888877777764 3


Q ss_pred             cCCCcceeeeccc
Q 009534          403 LAPNLKLIQMYDC  415 (532)
Q Consensus       403 ~l~~L~~L~l~~c  415 (532)
                      .+.+|++|.+.+.
T Consensus       207 ~~~~L~~l~~~~N  219 (394)
T COG4886         207 LLSALEELDLSNN  219 (394)
T ss_pred             hhhhhhhhhhcCC
Confidence            4455777777654

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.24  E-value=0.0016  Score=60.96  Aligned_cols=107  Identities=18%  Similarity=0.233  Sum_probs=63.9

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccc--cCcceeeecccCCccccccccCCCCCccEEEEeCCccc---
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYC--KDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLR---  396 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c--~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~---  396 (532)
                      +.+|+.|++.++- ++++  ..++.|++|+.|.++.-  ...-.++.-.           ..+|+|++|++++|+++   
T Consensus        42 ~~~le~ls~~n~g-ltt~--~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~-----------e~~P~l~~l~ls~Nki~~ls  107 (260)
T KOG2739|consen   42 FVELELLSVINVG-LTTL--TNFPKLPKLKKLELSDNYRRVSGGLEVLA-----------EKAPNLKVLNLSGNKIKDLS  107 (260)
T ss_pred             ccchhhhhhhccc-eeec--ccCCCcchhhhhcccCCcccccccceehh-----------hhCCceeEEeecCCcccccc
Confidence            4456666666543 3333  23677888899888754  1111222222           24689999999998444   


Q ss_pred             cCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccc
Q 009534          397 HVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGL  452 (532)
Q Consensus       397 ~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  452 (532)
                      .++.+..++||..|++.+|+... +..     ..    ...+.-+|+|++|+-.+.
T Consensus       108 tl~pl~~l~nL~~Ldl~n~~~~~-l~d-----yr----e~vf~ll~~L~~LD~~dv  153 (260)
T KOG2739|consen  108 TLRPLKELENLKSLDLFNCSVTN-LDD-----YR----EKVFLLLPSLKYLDGCDV  153 (260)
T ss_pred             ccchhhhhcchhhhhcccCCccc-ccc-----HH----HHHHHHhhhhcccccccc
Confidence            35567788888899998887544 111     00    013444677777776554

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=96.24  E-value=0.013  Score=57.42  Aligned_cols=46  Identities=22%  Similarity=0.265  Sum_probs=34.3

Q ss_pred             HHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          159 VWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       159 l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      +..++..+.+.-+-.||++|+||||||+.+.... +...    ..+|+.+-
T Consensus       153 lrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts-k~~S----yrfvelSA  198 (554)
T KOG2028|consen  153 LRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS-KKHS----YRFVELSA  198 (554)
T ss_pred             HHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc-CCCc----eEEEEEec
Confidence            4445556788889999999999999999999876 3222    45666554

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

Probab=96.21  E-value=0.011  Score=58.97  Aligned_cols=45  Identities=31%  Similarity=0.393  Sum_probs=34.8

Q ss_pred             cccccHHHH---HHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTL---DRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++||.+.-+   .-|.+++..+.+.-.-.||++|+||||||+.+....
T Consensus        25 e~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~   72 (436)
T COG2256          25 EVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT   72 (436)
T ss_pred             HhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh
Confidence            456665433   345566667788888899999999999999998876

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.18  E-value=0.0065  Score=61.27  Aligned_cols=46  Identities=17%  Similarity=0.333  Sum_probs=40.9

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|+++.++.+.+++..+..+.+-++|+.|+||||+|+.+.+..
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l   60 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALAREL   60 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999988776667899999999999999998877

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=96.14  E-value=0.037  Score=55.25  Aligned_cols=69  Identities=16%  Similarity=0.309  Sum_probs=50.3

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhcc---CCCCCCCeEEEEE-eCCCCCHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSFL---HTPNNFDFVIWEV-VSRDLQLGK  215 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~---~~~~~F~~~~wv~-v~~~~~~~~  215 (532)
                      .+++|.+..++.+.+++..++ .+..-++|+.|+||||+|+.++....   ....|+|...|.. -+....+.+
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~   77 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD   77 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH
Confidence            457899999999999998765 46778999999999999999988652   1234667665654 233344444

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.13  E-value=0.021  Score=57.03  Aligned_cols=46  Identities=22%  Similarity=0.325  Sum_probs=41.1

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|+++.++.+..++..+..+.+-++|..|+||||+|+.+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l   62 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALAREL   62 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999987766678999999999999999999886

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.12  E-value=0.0069  Score=63.73  Aligned_cols=45  Identities=22%  Similarity=0.403  Sum_probs=40.3

Q ss_pred             cccccHHHHHHHHHHhc------cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLT------EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++|.++.+++|++.|.      ..+.+++.++|+.|+||||||+.+..-.
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~l  127 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLM  127 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHH
Confidence            57999999999999983      3467899999999999999999999877

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.12  E-value=0.0063  Score=68.77  Aligned_cols=46  Identities=26%  Similarity=0.373  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||+++++.+++.|......-+-++|.+|+|||++|+.+....
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i  224 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRI  224 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999987654455699999999999999998876

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=96.11  E-value=0.01  Score=56.12  Aligned_cols=55  Identities=16%  Similarity=0.143  Sum_probs=40.5

Q ss_pred             cHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          152 LQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       152 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      .+..++.+.+++.......+-++|..|+|||++|+.+++...   ......++++++.
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~---~~~~~~~~i~~~~   76 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE---ERGKSAIYLPLAE   76 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH---hcCCcEEEEeHHH
Confidence            455677777776666677899999999999999999998872   2334456665433

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.

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=96.10  E-value=0.0002  Score=67.93  Aligned_cols=158  Identities=18%  Similarity=0.154  Sum_probs=101.9

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccc-c-CC
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLR-H-VT  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~-~-l~  399 (532)
                      +++|+.|.|.+.. +..--...+..-.+|+.|+++.|..+.+......         ..++..|..|+|+.|.+. . +.
T Consensus       209 C~kLk~lSlEg~~-LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll---------~~scs~L~~LNlsWc~l~~~~Vt  278 (419)
T KOG2120|consen  209 CSKLKNLSLEGLR-LDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLL---------LSSCSRLDELNLSWCFLFTEKVT  278 (419)
T ss_pred             HHhhhhccccccc-cCcHHHHHHhccccceeeccccccccchhHHHHH---------HHhhhhHhhcCchHhhccchhhh
Confidence            4778888888754 3332222355567999999999988876543222         136889999999999443 3 22


Q ss_pred             c--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC-CCcCCCCccEEeecCC
Q 009534          400 W--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP-RALPFPHLKELHVTLC  476 (532)
Q Consensus       400 ~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~L~~L~i~~C  476 (532)
                      .  .+--++|..|+|++|..--....      .    ..-...+|+|..|+|++|-.|+.-.. .+..|+.|++|.++.|
T Consensus       279 v~V~hise~l~~LNlsG~rrnl~~sh------~----~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRC  348 (419)
T KOG2120|consen  279 VAVAHISETLTQLNLSGYRRNLQKSH------L----STLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRC  348 (419)
T ss_pred             HHHhhhchhhhhhhhhhhHhhhhhhH------H----HHHHHhCCceeeeccccccccCchHHHHHHhcchheeeehhhh
Confidence            2  23357899999999864221111      0    00234589999999999988876333 4567999999999999


Q ss_pred             CCCCC---CCCCCCCCCCceeEEecc
Q 009534          477 PKLKK---LPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       477 ~~L~~---lp~~~~~~l~~L~~~~~~  499 (532)
                      =-+--   +-+.....+..|.+.+|-
T Consensus       349 Y~i~p~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  349 YDIIPETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             cCCChHHeeeeccCcceEEEEecccc
Confidence            65421   111222225666666653

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=96.08  E-value=0.00054  Score=72.60  Aligned_cols=37  Identities=19%  Similarity=0.274  Sum_probs=17.1

Q ss_pred             CCCccEEEEeCC-ccccC--Cc-hhcCCCcceeeecccccc
Q 009534          382 FFSLHKVSIWGS-KLRHV--TW-LILAPNLKLIQMYDCRCL  418 (532)
Q Consensus       382 l~~L~~L~l~~c-~L~~l--~~-l~~l~~L~~L~l~~c~~l  418 (532)
                      +++|++|++.+| .++..  .. ...+++|++|+|++|..+
T Consensus       268 c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  268 CPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             CCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            445555555555 44331  11 233555555555555544

>PRK06547 hypothetical protein; Provisional

Probab=96.06  E-value=0.01  Score=53.50  Aligned_cols=36  Identities=25%  Similarity=0.159  Sum_probs=29.8

Q ss_pred             HHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          157 DRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       157 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+...+......+|+|.|+.|+||||+|+.+.+..
T Consensus         4 ~~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          4 ALIAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            344555666788999999999999999999998875

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=96.06  E-value=0.04  Score=47.98  Aligned_cols=114  Identities=11%  Similarity=0.095  Sum_probs=85.9

Q ss_pred             CCceecccchhhHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHH
Q 009534            2 GNVCSAQFSCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDV   81 (532)
Q Consensus         2 ~~~~~~~~~~~~v~~kl~~~~~~~~~~~~~~~~~~~~L~~~l~~l~~~l~~v~~~i~~ae~~~~~~~~~~~~Wl~~lr~~   81 (532)
                      .+.++.+++++.+++.+...+.+.......++.-++.|..+++.|...+.+++..=.+       -|..-+.=++++.++
T Consensus         2 ~~eL~~gaalG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~e-------ld~~~~ee~e~L~~~   74 (147)
T PF05659_consen    2 IAELVGGAALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVE-------LDRPRQEEIERLKEL   74 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhh-------cCCchhHHHHHHHHH
Confidence            3445577889999999999999999999999999999999999999999886544111       122236667889999


Q ss_pred             HHHHHHHHhccccCCCCCCchhhhchHHHHHHHHHHHHHHHHh
Q 009534           82 EKEVPRLSRKINLGGFCSGNCVERYKDGKRVVELLKNVQSLRK  124 (532)
Q Consensus        82 ~~d~ed~id~~~~~~~~~~~~~~r~~i~~~i~~i~~~i~~l~~  124 (532)
                      ..+++++++......  -+++...++.+++|+++.+.+.....
T Consensus        75 L~~g~~LV~k~sk~~--r~n~~kk~~y~~Ki~~le~~l~~f~~  115 (147)
T PF05659_consen   75 LEKGKELVEKCSKVR--RWNLYKKPRYARKIEELEESLRRFIQ  115 (147)
T ss_pred             HHHHHHHHHHhcccc--HHHHHhhHhHHHHHHHHHHHHHHHhc
Confidence            999999998821111  12556677789999999998876654

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.02  E-value=0.005  Score=58.72  Aligned_cols=182  Identities=21%  Similarity=0.222  Sum_probs=100.9

Q ss_pred             hcCCccCceeeEEeccc-hhHHHhhcCCcccccccCCCeEEEecCCCCCcc-ccccccccccccceeeccccCcceeeec
Q 009534          290 LLGLKHLNVLTITLHSF-AALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSL-SVLTLASLRHLEALDMRYCKDLEEMEID  367 (532)
Q Consensus       290 l~~L~~L~~L~i~~~~~-~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l-~~~~l~~l~~L~~L~i~~c~~L~~l~~~  367 (532)
                      +++||+|++|+++-... +.+..+|   .   -+.||+.|.|.+- .+.-- ..+.+..+|.++.|+++.. ++..+-.+
T Consensus        93 le~lP~l~~LNls~N~L~s~I~~lp---~---p~~nl~~lVLNgT-~L~w~~~~s~l~~lP~vtelHmS~N-~~rq~n~D  164 (418)
T KOG2982|consen   93 LEQLPALTTLNLSCNSLSSDIKSLP---L---PLKNLRVLVLNGT-GLSWTQSTSSLDDLPKVTELHMSDN-SLRQLNLD  164 (418)
T ss_pred             HhcCccceEeeccCCcCCCccccCc---c---cccceEEEEEcCC-CCChhhhhhhhhcchhhhhhhhccc-hhhhhccc
Confidence            56788888888653322 2222222   1   1356888888762 22211 1122456777777777652 33333221


Q ss_pred             ccCCccccccccCCCCCccEEEEeCC-cccc--CCch-hcCCCcceeeeccccccccccccccccCcCcccCcccccccc
Q 009534          368 YAGGEVKRIRETHGFFSLHKVSIWGS-KLRH--VTWL-ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFAR  443 (532)
Q Consensus       368 ~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~--l~~l-~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~  443 (532)
                      -..  .     ..--+-+++|+...| -..-  .--+ ..+||+..+.+..|+ ++....           ......||.
T Consensus       165 d~c--~-----e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~P-lK~~s~-----------ek~se~~p~  225 (418)
T KOG2982|consen  165 DNC--I-----EDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGP-LKTESS-----------EKGSEPFPS  225 (418)
T ss_pred             ccc--c-----cccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCc-ccchhh-----------cccCCCCCc
Confidence            111  0     001235666777777 2221  1112 347889988888876 444432           124455777


Q ss_pred             cceeeccccccccccCC--CCcCCCCccEEeecCCCCCCCCCCCCCCC-----CCceeEEecc
Q 009534          444 LERLSLGGLENLRSIYP--RALPFPHLKELHVTLCPKLKKLPFDCTSG-----HERKLIIKGQ  499 (532)
Q Consensus       444 L~~L~l~~~~~L~~i~~--~~~~~p~L~~L~i~~C~~L~~lp~~~~~~-----l~~L~~~~~~  499 (532)
                      +-.|+|.. .++.+|..  ....||+|..|.+.+-|-...+.-+....     +.++...++.
T Consensus       226 ~~~LnL~~-~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~~err~llIaRL~~v~vLNGs  287 (418)
T KOG2982|consen  226 LSCLNLGA-NNIDSWASVDALNGFPQLVDLRVSENPLSDPLRGGERRFLLIARLTKVQVLNGS  287 (418)
T ss_pred             chhhhhcc-cccccHHHHHHHcCCchhheeeccCCcccccccCCcceEEEEeeccceEEecCc
Confidence            77777765 45666644  45568999999999888777665443322     5666666655

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.00  E-value=0.0081  Score=67.77  Aligned_cols=46  Identities=22%  Similarity=0.277  Sum_probs=40.3

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||++++.++++.|......-+-++|.+|+||||+|+.+....
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i  232 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRI  232 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHH
Confidence            4679999999999999887655556699999999999999999876

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.

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=95.95  E-value=0.0052  Score=41.48  Aligned_cols=33  Identities=30%  Similarity=0.436  Sum_probs=17.7

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccc
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYC  358 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c  358 (532)
                      +|++|+++++ .++.+|.. +.+|++|+.|+++++
T Consensus         2 ~L~~L~l~~N-~i~~l~~~-l~~l~~L~~L~l~~N   34 (44)
T PF12799_consen    2 NLEELDLSNN-QITDLPPE-LSNLPNLETLNLSNN   34 (44)
T ss_dssp             T-SEEEETSS-S-SSHGGH-GTTCTTSSEEEETSS
T ss_pred             cceEEEccCC-CCcccCch-HhCCCCCCEEEecCC
Confidence            4666666664 35555543 555666666666655

...

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=95.94  E-value=0.0098  Score=53.70  Aligned_cols=104  Identities=15%  Similarity=0.188  Sum_probs=63.7

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc---CCch
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH---VTWL  401 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~---l~~l  401 (532)
                      ...+++++.+ +..++.  ++.++.|.+|.+++- .+..+......          .+++|+.|.+.+|++..   +-.+
T Consensus        44 ~d~iDLtdNd-l~~l~~--lp~l~rL~tLll~nN-rIt~I~p~L~~----------~~p~l~~L~LtnNsi~~l~dl~pL  109 (233)
T KOG1644|consen   44 FDAIDLTDND-LRKLDN--LPHLPRLHTLLLNNN-RITRIDPDLDT----------FLPNLKTLILTNNSIQELGDLDPL  109 (233)
T ss_pred             cceecccccc-hhhccc--CCCccccceEEecCC-cceeeccchhh----------hccccceEEecCcchhhhhhcchh
Confidence            5566776643 444443  677778888888763 56656555544          57888888888876655   3446


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccc
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGL  452 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  452 (532)
                      ..+|.|+.|.+-+.+--+.-.      ..    ..-+..+|+|+.|++.+-
T Consensus       110 a~~p~L~~Ltll~Npv~~k~~------YR----~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  110 ASCPKLEYLTLLGNPVEHKKN------YR----LYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             ccCCccceeeecCCchhcccC------ce----eEEEEecCcceEeehhhh
Confidence            677888888776543211110      00    013455788888887653

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

Probab=95.91  E-value=0.013  Score=54.06  Aligned_cols=72  Identities=21%  Similarity=0.287  Sum_probs=54.4

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCC-CeEEEEEeCCCCCHHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF-DFVIWEVVSRDLQLGKIQESI  220 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~v~~~~~~~~l~~~i  220 (532)
                      .++||-++.++.+--...+++..-+-|-||+|+||||-+..+.+..+  +..+ +.+.-...|...++.-+-..|
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LL--G~~~ke~vLELNASdeRGIDvVRn~I   99 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELL--GDSYKEAVLELNASDERGIDVVRNKI   99 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHh--ChhhhhHhhhccCccccccHHHHHHH
Confidence            46799999999988888888999999999999999999999988885  3333 455555556555554444433

>PLN03025 replication factor C subunit; Provisional

Probab=95.89  E-value=0.026  Score=56.43  Aligned_cols=46  Identities=22%  Similarity=0.295  Sum_probs=39.1

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++-++.+..++..++.+-+-++|+.|+||||+|+.+.+..
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3578998888888888877766657799999999999999999886

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.88  E-value=0.0099  Score=67.27  Aligned_cols=46  Identities=24%  Similarity=0.368  Sum_probs=40.6

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||+.++..+++.|......-+-++|.+|+|||++|+.+....
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999987666566699999999999999998887

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.87  E-value=0.001  Score=59.93  Aligned_cols=66  Identities=23%  Similarity=0.446  Sum_probs=42.7

Q ss_pred             ccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC-cccc--CCchhcCCCcceeeecccccc
Q 009534          344 LASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRH--VTWLILAPNLKLIQMYDCRCL  418 (532)
Q Consensus       344 l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~--l~~l~~l~~L~~L~l~~c~~l  418 (532)
                      +..++.++.|.+.+|..+.+...+..+         +-+++|+.|+|++| .+++  +-++.+++||+.|.|.+.+..
T Consensus       121 L~~l~~i~~l~l~~ck~~dD~~L~~l~---------~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~~l~~v  189 (221)
T KOG3864|consen  121 LRDLRSIKSLSLANCKYFDDWCLERLG---------GLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLYDLPYV  189 (221)
T ss_pred             HhccchhhhheeccccchhhHHHHHhc---------ccccchheeeccCCCeechhHHHHHHHhhhhHHHHhcCchhh
Confidence            445566666777777666655444333         24677777777777 7776  556777777777777665443

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

Probab=95.85  E-value=0.01  Score=66.19  Aligned_cols=46  Identities=24%  Similarity=0.327  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||+++++.+++.|......=+-++|.+|+|||++|+.+....
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~  227 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRI  227 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999977655556699999999999999999886

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=95.80  E-value=0.031  Score=51.65  Aligned_cols=26  Identities=35%  Similarity=0.586  Sum_probs=24.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++.+|||-|..|.||||+|+.++...
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~   32 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL   32 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            46899999999999999999999988

>PRK08181 transposase; Validated

Probab=95.78  E-value=0.49  Score=45.84  Aligned_cols=41  Identities=24%  Similarity=0.259  Sum_probs=29.5

Q ss_pred             HHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          161 RCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       161 ~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      +|+..  ..-+-++|..|+|||.||.++.+...   .....+.|++
T Consensus       101 ~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a~---~~g~~v~f~~  141 (269)
T PRK08181        101 SWLAK--GANLLLFGPPGGGKSHLAAAIGLALI---ENGWRVLFTR  141 (269)
T ss_pred             HHHhc--CceEEEEecCCCcHHHHHHHHHHHHH---HcCCceeeee
Confidence            45543  34589999999999999999998773   2233456664

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

Probab=95.77  E-value=0.012  Score=64.85  Aligned_cols=46  Identities=39%  Similarity=0.512  Sum_probs=37.6

Q ss_pred             CcccccHHHHH---HHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLD---RVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~---~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..+.   .+.+.+..++..-+-++|++|+||||+|+.+++..
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~   76 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT   76 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            35789887664   56666777777778899999999999999999876

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.77  E-value=0.088  Score=52.95  Aligned_cols=69  Identities=16%  Similarity=0.129  Sum_probs=49.9

Q ss_pred             HHHHHHhcc-CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCe-EEEEEeCC-CCCHHHHHHHHHHHhcCC
Q 009534          157 DRVWRCLTE-EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDF-VIWEVVSR-DLQLGKIQESIAKKIGLC  227 (532)
Q Consensus       157 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~v~~-~~~~~~l~~~i~~~l~~~  227 (532)
                      .++++.+.. ++-..+.|+|..|+|||||++.+.+...  .++-+. ++|+.+.+ ...+.++++.+...+...
T Consensus       121 ~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~--~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvas  192 (380)
T PRK12608        121 MRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVA--ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAS  192 (380)
T ss_pred             HhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHH--hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEee
Confidence            347777654 3445679999999999999999988773  223344 46767654 557899999998877653

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=95.72  E-value=0.0045  Score=67.87  Aligned_cols=105  Identities=19%  Similarity=0.251  Sum_probs=56.3

Q ss_pred             CccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCc
Q 009534          293 LKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGE  372 (532)
Q Consensus       293 L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~  372 (532)
                      ||.|+.|.++......-. +   ..+..+|+||..|++++++ +.++  +.+++++||+.|.+.+.+-...-.  ..   
T Consensus       147 LPsL~sL~i~~~~~~~~d-F---~~lc~sFpNL~sLDIS~Tn-I~nl--~GIS~LknLq~L~mrnLe~e~~~~--l~---  214 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDNDD-F---SQLCASFPNLRSLDISGTN-ISNL--SGISRLKNLQVLSMRNLEFESYQD--LI---  214 (699)
T ss_pred             CcccceEEecCceecchh-H---HHHhhccCccceeecCCCC-ccCc--HHHhccccHHHHhccCCCCCchhh--HH---
Confidence            577777775432221111 1   1222346778888888754 6666  337777788877777643221100  00   


Q ss_pred             cccccccCCCCCccEEEEeCC-ccccC--C-----chhcCCCcceeeecc
Q 009534          373 VKRIRETHGFFSLHKVSIWGS-KLRHV--T-----WLILAPNLKLIQMYD  414 (532)
Q Consensus       373 ~~~~~~~~~l~~L~~L~l~~c-~L~~l--~-----~l~~l~~L~~L~l~~  414 (532)
                           .+-+|.+|+.|+++.- ....-  .     .-..||+|+.|+.++
T Consensus       215 -----~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSg  259 (699)
T KOG3665|consen  215 -----DLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSG  259 (699)
T ss_pred             -----HHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCC
Confidence                 1224778888888765 32221  0     122377777777764

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

Probab=95.72  E-value=0.25  Score=54.37  Aligned_cols=98  Identities=18%  Similarity=0.330  Sum_probs=62.6

Q ss_pred             CcccccHHHHHHHHHHhcc-------C--CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------E--PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQ  217 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~  217 (532)
                      ..++|.++.++.+.+.+..       +  .....-..|+.|||||.||+.+.....   +.=+..+-+.+|..-....+.
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lf---g~e~aliR~DMSEy~EkHsVS  567 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALF---GDEQALIRIDMSEYMEKHSVS  567 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhc---CCCccceeechHHHHHHHHHH
Confidence            4689999999999999853       1  356777799999999999999988873   222555656555533333322


Q ss_pred             HHHHHHhcCCCCCCCCCCHHHHHHHHHHHhcCCcEEEe
Q 009534          218 ESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLIS  255 (532)
Q Consensus       218 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlV  255 (532)
                      +    =++.++   ..-..++ -..|-+.++.+.|=+|
T Consensus       568 r----LIGaPP---GYVGyee-GG~LTEaVRr~PySVi  597 (786)
T COG0542         568 R----LIGAPP---GYVGYEE-GGQLTEAVRRKPYSVI  597 (786)
T ss_pred             H----HhCCCC---CCceecc-ccchhHhhhcCCCeEE
Confidence            2    233332   1111122 2346677788888666

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=95.72  E-value=0.012  Score=60.61  Aligned_cols=46  Identities=30%  Similarity=0.406  Sum_probs=38.1

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|+++.++++.+.+..             ...+-|-++|++|+|||++|+++++..
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~  189 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET  189 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh
Confidence            4678999999999887632             135568899999999999999999987

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=95.71  E-value=0.013  Score=59.80  Aligned_cols=46  Identities=28%  Similarity=0.403  Sum_probs=38.2

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|+++.++++.+.+..             ...+-+-++|+.|+|||++|+++++..
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l  180 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET  180 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC
Confidence            4679999999999887642             124558899999999999999999987

Many proteins may score above the trusted cutoff because an internal

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.70  E-value=0.013  Score=50.91  Aligned_cols=36  Identities=25%  Similarity=0.322  Sum_probs=27.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      ..-|.|.||+|+||||+++.+.+.. +. ..|...-++
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L-~~-~g~kvgGf~   40 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL-RE-KGYKVGGFI   40 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH-Hh-cCceeeeEE
Confidence            3468999999999999999999988 33 336544333

>PRK04195 replication factor C large subunit; Provisional

Probab=95.67  E-value=0.0095  Score=63.18  Aligned_cols=46  Identities=30%  Similarity=0.514  Sum_probs=40.0

Q ss_pred             CcccccHHHHHHHHHHhcc---C-CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE---E-PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~---~-~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+|+..   + ..+.+-|+|+.|+||||+|+.+.++.
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999864   2 26789999999999999999999987

>PF13173 AAA_14: AAA domain

Probab=95.64  E-value=0.016  Score=49.50  Aligned_cols=38  Identities=32%  Similarity=0.392  Sum_probs=30.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      .+++.|.|+.|+||||+++.++.+. .   ..+..+++.+..
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~-~---~~~~~~yi~~~~   39 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL-L---PPENILYINFDD   39 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh-c---ccccceeeccCC
Confidence            4789999999999999999999887 2   345667776554

>TIGR00763 lon ATP-dependent protease La

Probab=95.63  E-value=0.067  Score=60.20  Aligned_cols=46  Identities=30%  Similarity=0.378  Sum_probs=38.1

Q ss_pred             CcccccHHHHHHHHHHhcc------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++.|.+++..      .+..++.++|+.|+|||++|+.+.+..
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l  371 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL  371 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999887642      134578999999999999999999987

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.

>PHA00729 NTP-binding motif containing protein

Probab=95.60  E-value=0.018  Score=53.73  Aligned_cols=35  Identities=17%  Similarity=0.299  Sum_probs=29.0

Q ss_pred             HHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          158 RVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       158 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++.+..++...|.|.|.+|+||||||..+.+..
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45566666667789999999999999999998875

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.57  E-value=0.03  Score=48.74  Aligned_cols=75  Identities=20%  Similarity=0.357  Sum_probs=46.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCC-----CCCCCHHHHHHHHH
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES-----WDSKSFDEKAQEIF  244 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~-----~~~~~~~~~~~~l~  244 (532)
                      +|+|-|.+|.||||+|+.+.++..     +.++         +...+.+++++..+.+...     ..+...+...+.-.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~g-----l~~v---------saG~iFR~~A~e~gmsl~ef~~~AE~~p~iD~~iD~rq   67 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLG-----LKLV---------SAGTIFREMARERGMSLEEFSRYAEEDPEIDKEIDRRQ   67 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhC-----Ccee---------eccHHHHHHHHHcCCCHHHHHHHHhcCchhhHHHHHHH
Confidence            689999999999999999999872     2211         3456788888877664311     02333344444443


Q ss_pred             HHhcCCcEEEe--hhh
Q 009534          245 KTMRNTKFLIS--NLK  258 (532)
Q Consensus       245 ~~L~~kr~LlV--~lA  258 (532)
                      ..+..+.-++|  +||
T Consensus        68 ~e~a~~~nvVlegrLA   83 (179)
T COG1102          68 KELAKEGNVVLEGRLA   83 (179)
T ss_pred             HHHHHcCCeEEhhhhH
Confidence            44444555666  565

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=95.57  E-value=0.019  Score=54.42  Aligned_cols=27  Identities=33%  Similarity=0.480  Sum_probs=24.8

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++..+++|.|..|.|||||++.+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999998877

>PRK08233 hypothetical protein; Provisional

Probab=95.52  E-value=0.013  Score=53.22  Aligned_cols=25  Identities=28%  Similarity=0.492  Sum_probs=23.0

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|+|.|..|+||||+|+.+....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4789999999999999999998876

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=95.52  E-value=0.0011  Score=65.32  Aligned_cols=123  Identities=21%  Similarity=0.281  Sum_probs=68.4

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC-ccccCCc--h
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRHVTW--L  401 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~l~~--l  401 (532)
                      ...|.|.. ++++++|...|+.+++|++|+++. .+++.+..+...          ++++|..|-+.++ +++.+|.  +
T Consensus        69 tveirLdq-N~I~~iP~~aF~~l~~LRrLdLS~-N~Is~I~p~AF~----------GL~~l~~Lvlyg~NkI~~l~k~~F  136 (498)
T KOG4237|consen   69 TVEIRLDQ-NQISSIPPGAFKTLHRLRRLDLSK-NNISFIAPDAFK----------GLASLLSLVLYGNNKITDLPKGAF  136 (498)
T ss_pred             ceEEEecc-CCcccCChhhccchhhhceecccc-cchhhcChHhhh----------hhHhhhHHHhhcCCchhhhhhhHh
Confidence            34455555 457777777777777777777776 356656554433          5667766666664 7777664  5


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC-CCcCCCCccEEee
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP-RALPFPHLKELHV  473 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~L~~L~i  473 (532)
                      ..|..|+.|.+.- ..+..+..            +.+..+++|..|.+.+ ..++.++. .+..+.+++.+.+
T Consensus       137 ~gL~slqrLllNa-n~i~Cir~------------~al~dL~~l~lLslyD-n~~q~i~~~tf~~l~~i~tlhl  195 (498)
T KOG4237|consen  137 GGLSSLQRLLLNA-NHINCIRQ------------DALRDLPSLSLLSLYD-NKIQSICKGTFQGLAAIKTLHL  195 (498)
T ss_pred             hhHHHHHHHhcCh-hhhcchhH------------HHHHHhhhcchhcccc-hhhhhhccccccchhccchHhh
Confidence            5566666655532 22333332            2444555565555555 34455554 2333444444443

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=95.50  E-value=0.011  Score=49.99  Aligned_cols=21  Identities=33%  Similarity=0.716  Sum_probs=19.6

Q ss_pred             EEEecCCCCcHHHHHHHHHHh
Q 009534          171 VGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~  191 (532)
                      |.|.|..|+||||+|+.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999999887

...

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=95.47  E-value=0.017  Score=65.49  Aligned_cols=46  Identities=24%  Similarity=0.379  Sum_probs=40.0

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||++++.++++.|......-+-++|.+|+|||++|+.+..+.
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i  218 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRI  218 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            4589999999999999977655556689999999999999998876

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.

>PRK07667 uridine kinase; Provisional

Probab=95.47  E-value=0.02  Score=52.70  Aligned_cols=37  Identities=22%  Similarity=0.426  Sum_probs=29.6

Q ss_pred             HHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          156 LDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       156 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+.+.+.+..  ++..+|+|-|..|.||||+|+.+....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455555543  356899999999999999999999877

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.47  E-value=0.043  Score=57.01  Aligned_cols=44  Identities=14%  Similarity=0.144  Sum_probs=38.1

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|+++.++.+...+..+  .-+-+.|++|+|||++|+.+....
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHh
Confidence            57899999999999988764  446689999999999999999876

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.46  E-value=0.014  Score=54.50  Aligned_cols=27  Identities=33%  Similarity=0.498  Sum_probs=24.4

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+..+|+|.|..|+||||||+.+....
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999999999876

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.46  E-value=0.013  Score=53.52  Aligned_cols=25  Identities=28%  Similarity=0.458  Sum_probs=23.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|+|-||-|+||||||+.+.++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4689999999999999999999988

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.46  E-value=0.02  Score=60.12  Aligned_cols=46  Identities=24%  Similarity=0.316  Sum_probs=39.3

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+.-++.+.+.+..++. +.+-++|+.|+||||+|+.+.+..
T Consensus        14 ~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l   60 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSL   60 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999888888888877765 567899999999999999998876

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.43  E-value=0.012  Score=54.15  Aligned_cols=23  Identities=39%  Similarity=0.683  Sum_probs=22.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ||+|.|.+|+||||+|+.+....
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L   23 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQIL   23 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            79999999999999999999988

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 ....

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=95.40  E-value=0.021  Score=55.32  Aligned_cols=45  Identities=24%  Similarity=0.278  Sum_probs=32.6

Q ss_pred             cccccHHHHHHHHHH---hcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRC---LTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~---L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.+..++.|.+.   +.-            +...-+-++|++|+||||+|+.+++..
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            478888776665543   211            134557789999999999999998765

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.39  E-value=0.02  Score=51.84  Aligned_cols=36  Identities=22%  Similarity=0.364  Sum_probs=29.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      +..+|.+.|+.|+||||+|+.++...   ...+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            45689999999999999999999988   2455556555

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=95.38  E-value=0.084  Score=44.86  Aligned_cols=39  Identities=23%  Similarity=0.137  Sum_probs=28.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      ...+.|+|+.|+||||+++.+.....   .....++++..+.
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~---~~~~~~~~~~~~~   40 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELG---PPGGGVIYIDGED   40 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccC---CCCCCEEEECCEE
Confidence            35788999999999999999998872   2223455565443

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.

>PRK10536 hypothetical protein; Provisional

Probab=95.37  E-value=0.091  Score=50.05  Aligned_cols=44  Identities=11%  Similarity=0.175  Sum_probs=37.1

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.+++......+.++.+.  .++.+.|..|+|||+||.++..+.
T Consensus        55 ~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~   98 (262)
T PRK10536         55 SPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEA   98 (262)
T ss_pred             ccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHH
Confidence            34678888888899988763  499999999999999999988864

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.34  E-value=0.026  Score=57.58  Aligned_cols=46  Identities=24%  Similarity=0.286  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+..++.+.+.+..++ .+.+-++|+.|+||||+|+.+....
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l   62 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSL   62 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHh
Confidence            468999999999999988765 4567899999999999999998876

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

Probab=95.34  E-value=0.024  Score=53.93  Aligned_cols=46  Identities=28%  Similarity=0.415  Sum_probs=36.5

Q ss_pred             CcccccHHHHHHHHHHhc-----cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT-----EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++-++.+-=.+.     .+.+--+-++|++|.||||||.-+.+..
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em   76 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL   76 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh
Confidence            357998877776655553     2356678899999999999999999988

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.31  E-value=0.082  Score=51.82  Aligned_cols=85  Identities=20%  Similarity=0.258  Sum_probs=46.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC-CHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL-QLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~-~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      +.+++.|+|+.|+||||++..+.... ..+..-..+..|+..... ....-+......++.+..  ...+..+....+ +
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~-~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~--~~~~~~~l~~~l-~  268 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARF-VLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVK--VARDPKELRKAL-D  268 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCcee--ccCCHHHHHHHH-H
Confidence            45799999999999999999988776 222111345556543321 122222333333443321  223444444333 3


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      .+.+..++||
T Consensus       269 ~~~~~d~vli  278 (282)
T TIGR03499       269 RLRDKDLILI  278 (282)
T ss_pred             HccCCCEEEE
Confidence            4566777776

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.28  E-value=0.13  Score=50.31  Aligned_cols=27  Identities=22%  Similarity=0.236  Sum_probs=23.1

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.+|+|.|..|+||||+|+.+..-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999998876554

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.

>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=95.28  E-value=0.083  Score=48.69  Aligned_cols=85  Identities=18%  Similarity=0.183  Sum_probs=51.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhcCCCCCC-CCCCHHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR-DLQLGKIQESIAKKIGLCNESW-DSKSFDEKAQEIFK  245 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  245 (532)
                      ++++.++|+.|+||||.+-++.... ..+  -..+..++... .....+=++..++.++.+.... ...+..+......+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~-~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~   77 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL-KLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALE   77 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH-HHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH-hhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHH
Confidence            4789999999999999998888777 322  34566676543 2244555667777777642111 23344444443333


Q ss_pred             HhcC--CcEEEe
Q 009534          246 TMRN--TKFLIS  255 (532)
Q Consensus       246 ~L~~--kr~LlV  255 (532)
                      ..+.  ..+++|
T Consensus        78 ~~~~~~~D~vlI   89 (196)
T PF00448_consen   78 KFRKKGYDLVLI   89 (196)
T ss_dssp             HHHHTTSSEEEE
T ss_pred             HHhhcCCCEEEE
Confidence            3433  457887

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 ....

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=95.27  E-value=0.024  Score=56.69  Aligned_cols=46  Identities=13%  Similarity=0.080  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++..+.+..++..++ ..++-++|+.|+||||+|+.+++..
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~   67 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV   67 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            467999999999999998765 4677779999999999999998876

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.26  E-value=0.068  Score=54.10  Aligned_cols=85  Identities=18%  Similarity=0.172  Sum_probs=50.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR-DLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      +-.++.++|+.|+||||++.++..... .+.....+..++... .....+-++...+.++.+..  ...+..+.. ....
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~-~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~--~~~~~~~l~-~~l~  211 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCV-MRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH--AVKDGGDLQ-LALA  211 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE--ecCCcccHH-HHHH
Confidence            357999999999999999999988762 111223556665332 12334444555555555332  122222233 2334


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      .+.++.+++|
T Consensus       212 ~l~~~DlVLI  221 (374)
T PRK14722        212 ELRNKHMVLI  221 (374)
T ss_pred             HhcCCCEEEE
Confidence            5678899988

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.23  E-value=0.019  Score=60.78  Aligned_cols=46  Identities=26%  Similarity=0.266  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+.-++.+.+++..++. +.+-++|+.|+||||+|+.+....
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l   60 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAV   60 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999887764 566999999999999999998877

>PRK06762 hypothetical protein; Provisional

Probab=95.20  E-value=0.019  Score=51.38  Aligned_cols=25  Identities=28%  Similarity=0.496  Sum_probs=22.7

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.|.|+.|+||||+|+.+....
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>TIGR00235 udk uridine kinase

Probab=95.16  E-value=0.02  Score=53.45  Aligned_cols=26  Identities=35%  Similarity=0.457  Sum_probs=23.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|+|.|+.|+||||||+.+....
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999876

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PTZ00301 uridine kinase; Provisional

Probab=95.16  E-value=0.02  Score=53.39  Aligned_cols=25  Identities=32%  Similarity=0.631  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|+|-|..|.||||+|+.+....
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            5789999999999999999998776

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.16  E-value=0.04  Score=46.25  Aligned_cols=47  Identities=15%  Similarity=0.247  Sum_probs=38.0

Q ss_pred             CcccccHHHHHHHHHHhcc-------CCceEEEEecCCCCcHHHHHHHHHHhcc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------EPVGIVGLYGMGGVGKTTLLTQINNSFL  193 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------~~~~vi~I~G~gGiGKTtLa~~v~~~~~  193 (532)
                      ..++|..-..+.|++.+.+       +++-|++.+|..|+|||.+++.+.+...
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly   78 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLY   78 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHH
Confidence            4678888777777777743       3788999999999999999988877743

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.14  E-value=0.0013  Score=61.90  Aligned_cols=84  Identities=20%  Similarity=0.275  Sum_probs=53.6

Q ss_pred             cccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeecccccccccccccc
Q 009534          347 LRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEK  426 (532)
Q Consensus       347 l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~  426 (532)
                      +.+.+.|+.++| .|.++.+  .          ..++.|+.|.|+-|+++.+.++..+.+|++|+|... .+.++..   
T Consensus        18 l~~vkKLNcwg~-~L~DIsi--c----------~kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN-~I~sldE---   80 (388)
T KOG2123|consen   18 LENVKKLNCWGC-GLDDISI--C----------EKMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKN-CIESLDE---   80 (388)
T ss_pred             HHHhhhhcccCC-CccHHHH--H----------HhcccceeEEeeccccccchhHHHHHHHHHHHHHhc-ccccHHH---
Confidence            445666677776 3544433  1          257788888888778888777888888888888642 2333322   


Q ss_pred             ccCcCcccCcccccccccceeeccccccc
Q 009534          427 LGEVPSEEMQNLIPFARLERLSLGGLENL  455 (532)
Q Consensus       427 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~L  455 (532)
                              -..+.++|+|+.|-|...|.-
T Consensus        81 --------L~YLknlpsLr~LWL~ENPCc  101 (388)
T KOG2123|consen   81 --------LEYLKNLPSLRTLWLDENPCC  101 (388)
T ss_pred             --------HHHHhcCchhhhHhhccCCcc
Confidence                    124666777777777766543

>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=95.11  E-value=0.02  Score=42.89  Aligned_cols=23  Identities=26%  Similarity=0.569  Sum_probs=20.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|.|.|..|+||||+++.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998873

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.07  E-value=0.029  Score=58.33  Aligned_cols=46  Identities=20%  Similarity=0.307  Sum_probs=40.4

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+..+..+..++..+++ +.+-++|+.|+||||+|+.+....
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~L   64 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRL   64 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4589999999999999988775 467899999999999999998877

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.05  E-value=0.15  Score=52.87  Aligned_cols=86  Identities=22%  Similarity=0.215  Sum_probs=51.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhcCCCCCC-CCCCHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR-DLQLGKIQESIAKKIGLCNESW-DSKSFDEKAQEIF  244 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  244 (532)
                      .+.+|.++|..|+||||.+..+.... .. ..+ .++-|+... .....+-++.++..++.+.... ...+.........
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L-~~-~g~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al  170 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYF-KK-KGL-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGL  170 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-HH-cCC-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            46899999999999999999998877 32 223 344454322 1123444556666665543211 1234444444444


Q ss_pred             HHhcCCcEEEe
Q 009534          245 KTMRNTKFLIS  255 (532)
Q Consensus       245 ~~L~~kr~LlV  255 (532)
                      +.+.+..++||
T Consensus       171 ~~~~~~DvVII  181 (437)
T PRK00771        171 EKFKKADVIIV  181 (437)
T ss_pred             HHhhcCCEEEE
Confidence            55566688888

>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=95.04  E-value=0.13  Score=48.34  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=21.4

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+|.|..|+||||+|+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999877

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=95.00  E-value=0.24  Score=50.53  Aligned_cols=104  Identities=18%  Similarity=0.221  Sum_probs=71.3

Q ss_pred             CCcccccHHHHHHHHHHhcc----CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHH
Q 009534          146 PPTVVGLQSTLDRVWRCLTE----EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIA  221 (532)
Q Consensus       146 ~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~  221 (532)
                      +..++||+.+.+.+.+++..    ...+-+=|.|..|.|||.+...++.+....... -.++++....-.....+...|.
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~-~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKS-PVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhccc-ceeEEEeeccccchHHHHHHHH
Confidence            45789999999999999864    367778889999999999999999988211111 1345665555456778888888


Q ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHhcCCcE
Q 009534          222 KKIGLCNESWDSKSFDEKAQEIFKTMRNTKF  252 (532)
Q Consensus       222 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~  252 (532)
                      ..+-....  ......+....+.++.++.++
T Consensus       228 ~~~~q~~~--s~~~~~~~~~~~~~h~~q~k~  256 (529)
T KOG2227|consen  228 SSLLQDLV--SPGTGMQHLEKFEKHTKQSKF  256 (529)
T ss_pred             HHHHHHhc--CCchhHHHHHHHHHHHhcccc
Confidence            87722111  122225566777777776663

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

Probab=94.97  E-value=0.038  Score=54.34  Aligned_cols=46  Identities=28%  Similarity=0.415  Sum_probs=37.8

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++-|.++.+++|.+.+.-             +.++=|-.+|++|+|||-||++|.++-
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T  209 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT  209 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            3467889999998888642             246667889999999999999999987

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=94.95  E-value=0.046  Score=51.73  Aligned_cols=43  Identities=21%  Similarity=0.303  Sum_probs=30.1

Q ss_pred             cccHHHH-HHHHHHhcc-CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          150 VGLQSTL-DRVWRCLTE-EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       150 vGr~~~~-~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.++.. ..+.++... .....+.|+|..|+|||+||+.+++..
T Consensus        22 ~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         22 AGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             cCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3554444 333333332 345678899999999999999999986

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=94.94  E-value=0.024  Score=51.80  Aligned_cols=26  Identities=27%  Similarity=0.340  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+|.|+|+.|+||||+|+.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999998765

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.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.93  E-value=0.081  Score=53.92  Aligned_cols=46  Identities=20%  Similarity=0.252  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHhccC--------------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEE--------------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~--------------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+.-.+...              ..+-|-++|+.|+|||++|+.+....
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999998887766531              24678899999999999999998887

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.

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

Probab=94.91  E-value=0.03  Score=62.12  Aligned_cols=46  Identities=24%  Similarity=0.333  Sum_probs=38.8

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||++++..+++.|......-+-++|..|+|||++|+.+....
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999877543444589999999999999998875

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=94.81  E-value=0.02  Score=59.10  Aligned_cols=128  Identities=21%  Similarity=0.257  Sum_probs=85.1

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC-ccccCCc
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRHVTW  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~l~~  400 (532)
                      +++|+.|++++++ +..+|.. ...+++|+.|.+++. .+..+|....           ...+|++|.+.++ .+..+..
T Consensus       162 l~~L~~L~l~~N~-l~~l~~~-~~~~~~L~~L~ls~N-~i~~l~~~~~-----------~~~~L~~l~~~~N~~~~~~~~  227 (394)
T COG4886         162 LPNLKNLDLSFND-LSDLPKL-LSNLSNLNNLDLSGN-KISDLPPEIE-----------LLSALEELDLSNNSIIELLSS  227 (394)
T ss_pred             cccccccccCCch-hhhhhhh-hhhhhhhhheeccCC-ccccCchhhh-----------hhhhhhhhhhcCCcceecchh
Confidence            4668888888865 7777653 336678888888874 5666665321           1445888888887 4554555


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKL  479 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L  479 (532)
                      +..+.++..|.+. ...+..++.             .+..++.|+.|++.++ .+.+++. .+.+.+|+.|++.+-...
T Consensus       228 ~~~~~~l~~l~l~-~n~~~~~~~-------------~~~~l~~l~~L~~s~n-~i~~i~~-~~~~~~l~~L~~s~n~~~  290 (394)
T COG4886         228 LSNLKNLSGLELS-NNKLEDLPE-------------SIGNLSNLETLDLSNN-QISSISS-LGSLTNLRELDLSGNSLS  290 (394)
T ss_pred             hhhcccccccccC-Cceeeeccc-------------hhccccccceeccccc-ccccccc-ccccCccCEEeccCcccc
Confidence            7777777777753 344444433             5666777888888774 4666665 667778888888774333

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.81  E-value=0.0041  Score=56.06  Aligned_cols=66  Identities=21%  Similarity=0.293  Sum_probs=50.5

Q ss_pred             CCCCccEEEEeCC-cccc--CCchh-cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccc
Q 009534          381 GFFSLHKVSIWGS-KLRH--VTWLI-LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLR  456 (532)
Q Consensus       381 ~l~~L~~L~l~~c-~L~~--l~~l~-~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~  456 (532)
                      .++.++.|.+.+| .+..  +..++ -.|+|+.|+|++|+.+++-.-            ..+..|++|+.|.|.++|...
T Consensus       123 ~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL------------~~L~~lknLr~L~l~~l~~v~  190 (221)
T KOG3864|consen  123 DLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGL------------ACLLKLKNLRRLHLYDLPYVA  190 (221)
T ss_pred             ccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHH------------HHHHHhhhhHHHHhcCchhhh
Confidence            5778888889998 7776  33333 478999999999998877644            367788999999999887665


Q ss_pred             cc
Q 009534          457 SI  458 (532)
Q Consensus       457 ~i  458 (532)
                      ..
T Consensus       191 ~~  192 (221)
T KOG3864|consen  191 NL  192 (221)
T ss_pred             ch
Confidence            44

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.81  E-value=0.04  Score=58.70  Aligned_cols=46  Identities=30%  Similarity=0.377  Sum_probs=39.5

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+...+..++. +.+-++|+.|+||||+|+.+....
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L   62 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCL   62 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999987654 557789999999999999998765

>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=94.78  E-value=0.18  Score=47.42  Aligned_cols=89  Identities=24%  Similarity=0.273  Sum_probs=50.3

Q ss_pred             cccc-HHHHHHHHHHhcc-C--CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 009534          149 VVGL-QSTLDRVWRCLTE-E--PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKI  224 (532)
Q Consensus       149 ~vGr-~~~~~~l~~~L~~-~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l  224 (532)
                      ++|- ++..-...+.+.+ .  ....+-|+|..|+|||.|.+++++... ....=..++++      +..++...+...+
T Consensus        11 v~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~-~~~~~~~v~y~------~~~~f~~~~~~~~   83 (219)
T PF00308_consen   11 VVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEAQ-KQHPGKRVVYL------SAEEFIREFADAL   83 (219)
T ss_dssp             --TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHHH-HHCTTS-EEEE------EHHHHHHHHHHHH
T ss_pred             CcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHHH-hccccccceee------cHHHHHHHHHHHH
Confidence            4564 3333344444433 2  345678999999999999999999873 11111245566      4455666655555


Q ss_pred             cCCCCCCCCCCHHHHHHHHHHHhcCCcEEEe
Q 009534          225 GLCNESWDSKSFDEKAQEIFKTMRNTKFLIS  255 (532)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlV  255 (532)
                      ...           ....+++.+++-.+|++
T Consensus        84 ~~~-----------~~~~~~~~~~~~DlL~i  103 (219)
T PF00308_consen   84 RDG-----------EIEEFKDRLRSADLLII  103 (219)
T ss_dssp             HTT-----------SHHHHHHHHCTSSEEEE
T ss_pred             Hcc-----------cchhhhhhhhcCCEEEE
Confidence            331           12345555666666666

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.

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

Probab=94.77  E-value=0.31  Score=54.64  Aligned_cols=47  Identities=32%  Similarity=0.347  Sum_probs=39.8

Q ss_pred             CCcccccHHHHHHHHHHhcc------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          146 PPTVVGLQSTLDRVWRCLTE------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       146 ~~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+.+|.++-++.|++++..      ....++.++|+.|+||||+|+.+....
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l  373 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT  373 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            35679999999999998852      245689999999999999999999876

>PRK08084 DNA replication initiation factor; Provisional

Probab=94.77  E-value=0.088  Score=50.11  Aligned_cols=58  Identities=21%  Similarity=0.241  Sum_probs=38.5

Q ss_pred             ccccH-HHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          149 VVGLQ-STLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       149 ~vGr~-~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      ++|.+ ..+..+.++........+-|+|+.|+|||+|++.+++...   ..-..+.++++..
T Consensus        25 ~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~---~~~~~v~y~~~~~   83 (235)
T PRK08084         25 YPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS---QRGRAVGYVPLDK   83 (235)
T ss_pred             ccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEEHHH
Confidence            34633 3344444444444556889999999999999999999872   2234566776543

>PRK03839 putative kinase; Provisional

Probab=94.72  E-value=0.027  Score=51.14  Aligned_cols=23  Identities=35%  Similarity=0.601  Sum_probs=21.4

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|+.|+||||+|+.+.++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999987

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.69  E-value=0.043  Score=59.05  Aligned_cols=46  Identities=22%  Similarity=0.242  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+.+++..++ .+.+-++|+.|+||||+|+.+....
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~L   61 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCL   61 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999998776 4677899999999999999998776

>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=94.69  E-value=0.029  Score=48.59  Aligned_cols=23  Identities=30%  Similarity=0.528  Sum_probs=20.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|-+.|+.|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            57789999999999999998776

...

>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=94.63  E-value=0.031  Score=47.48  Aligned_cols=22  Identities=36%  Similarity=0.458  Sum_probs=20.4

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |-|+|+.|+||||+|+.+.+..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            4689999999999999999987

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 ....

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

Probab=94.63  E-value=0.05  Score=55.88  Aligned_cols=46  Identities=26%  Similarity=0.359  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.|.+..++++.+.+..             ...+-+-++|+.|+|||++|+++.+..
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l  203 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT  203 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            4678999888888876631             135678899999999999999999876

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=94.61  E-value=0.072  Score=49.62  Aligned_cols=49  Identities=18%  Similarity=0.200  Sum_probs=37.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      .-.++-|+|.+|+|||+++..+.....   ..-+.++|++... ++...+.+.
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~---~~g~~v~yi~~e~-~~~~rl~~~   59 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNAA---RQGKKVVYIDTEG-LSPERFKQI   59 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEECCC-CCHHHHHHH
Confidence            468999999999999999999877662   3457899999865 666555443

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

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

Probab=94.60  E-value=0.047  Score=51.30  Aligned_cols=46  Identities=24%  Similarity=0.363  Sum_probs=38.2

Q ss_pred             CcccccHHHHHH---HHHHhccC------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDR---VWRCLTEE------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~---l~~~L~~~------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++||.++.+.+   |++.|.+.      .++-|-.+|+.|.|||-+|+++.+..
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~  175 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA  175 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc
Confidence            567998877665   66777653      58889999999999999999999987

>PRK05439 pantothenate kinase; Provisional

Probab=94.60  E-value=0.32  Score=48.05  Aligned_cols=83  Identities=13%  Similarity=0.005  Sum_probs=44.7

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      +...+|+|.|..|+||||+|+.+.... .....-..+.-++...-+...+.+..  ..+.........-+.+.+...|..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l-~~~~~~~~v~vi~~DdFy~~~~~l~~--~~l~~~kg~Pes~D~~~l~~~L~~  160 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL-SRWPEHPKVELVTTDGFLYPNAVLEE--RGLMKRKGFPESYDMRALLRFLSD  160 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HhhCCCCceEEEeccccccCHHHHhh--hhccccCCCcccccHHHHHHHHHH
Confidence            367899999999999999999988765 21111123344444443322222211  111111111144566666666666


Q ss_pred             HhcCCc
Q 009534          246 TMRNTK  251 (532)
Q Consensus       246 ~L~~kr  251 (532)
                      ...++.
T Consensus       161 Lk~G~~  166 (311)
T PRK05439        161 VKSGKP  166 (311)
T ss_pred             HHcCCC
Confidence            555554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=94.59  E-value=0.3  Score=56.35  Aligned_cols=68  Identities=22%  Similarity=0.217  Sum_probs=49.5

Q ss_pred             CcccccHHHHHHHHHHhcc-CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeC-CCCCHHHHHHHHHHHh
Q 009534          147 PTVVGLQSTLDRVWRCLTE-EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVS-RDLQLGKIQESIAKKI  224 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~-~~~~~~~l~~~i~~~l  224 (532)
                      +.+|-|..-.+    .|.. ...+++.|.|++|.||||++.......    .   .++|+++. .+.+...+...++..+
T Consensus        14 ~~~~~R~rl~~----~l~~~~~~~~~~v~apaG~GKTtl~~~~~~~~----~---~~~w~~l~~~d~~~~~f~~~l~~~l   82 (903)
T PRK04841         14 HNTVVRERLLA----KLSGANNYRLVLVTSPAGYGKTTLISQWAAGK----N---NLGWYSLDESDNQPERFASYLIAAL   82 (903)
T ss_pred             cccCcchHHHH----HHhcccCCCeEEEECCCCCCHHHHHHHHHHhC----C---CeEEEecCcccCCHHHHHHHHHHHH
Confidence            45677764443    3333 357899999999999999999987543    2   68999986 4557677777777777


Q ss_pred             c
Q 009534          225 G  225 (532)
Q Consensus       225 ~  225 (532)
                      .
T Consensus        83 ~   83 (903)
T PRK04841         83 Q   83 (903)
T ss_pred             H
Confidence            4

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.59  E-value=0.048  Score=56.33  Aligned_cols=46  Identities=20%  Similarity=0.191  Sum_probs=39.4

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+.-++.+.+++..+++ +.+-++|+.|+||||+|+.+....
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l   62 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAV   62 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHh
Confidence            4679999989999998887765 457889999999999999998877

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=94.58  E-value=0.046  Score=58.47  Aligned_cols=46  Identities=13%  Similarity=0.224  Sum_probs=39.7

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+..++.+.+++..++ .+.+-++|+.|+||||+|+.+....
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L   62 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI   62 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            467999999999999987764 4578899999999999999998776

>PRK08727 hypothetical protein; Validated

Probab=94.53  E-value=0.1  Score=49.61  Aligned_cols=59  Identities=14%  Similarity=0.083  Sum_probs=38.0

Q ss_pred             cccccH-HHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          148 TVVGLQ-STLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       148 ~~vGr~-~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      +|++.. .....+...........+.|+|..|+|||+|++++++...   .....+.++++.+
T Consensus        20 ~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~---~~~~~~~y~~~~~   79 (233)
T PRK08727         20 SYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAE---QAGRSSAYLPLQA   79 (233)
T ss_pred             hccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEeHHH
Confidence            454433 3444443333333445699999999999999999998873   2334566776543

>PRK04040 adenylate kinase; Provisional

Probab=94.53  E-value=0.034  Score=50.87  Aligned_cols=25  Identities=36%  Similarity=0.561  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|+|+.|+||||+++.+....
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998887

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=94.52  E-value=0.33  Score=45.68  Aligned_cols=48  Identities=19%  Similarity=0.146  Sum_probs=36.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCC------CeEEEEEeCCCCCHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF------DFVIWEVVSRDLQLGKIQ  217 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F------~~~~wv~v~~~~~~~~l~  217 (532)
                      .-.++.|+|.+|+|||++|..+.....   ..-      ..++|++....++...+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~---~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQ---LPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhh---cccccCCCcceEEEEecCCCCCHHHHH
Confidence            467999999999999999999876652   223      577899887777765544

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>CHL00181 cbbX CbbX; Provisional

Probab=94.52  E-value=0.067  Score=52.51  Aligned_cols=45  Identities=24%  Similarity=0.350  Sum_probs=31.9

Q ss_pred             cccccHHHHHHHHHHhc---c------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLT---E------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~---~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++|.++-+++|.++..   -            +....+-++|.+|+||||+|+.++...
T Consensus        24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            57888776665554431   1            122347789999999999999997765

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.52  E-value=0.19  Score=50.87  Aligned_cols=83  Identities=20%  Similarity=0.283  Sum_probs=46.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHH--HHHHHHHHhcCCCCCCCCCCHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGK--IQESIAKKIGLCNESWDSKSFDEKAQEIF  244 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~--l~~~i~~~l~~~~~~~~~~~~~~~~~~l~  244 (532)
                      +.++|+++|.+|+||||++..+.... . ... ..+..++.. .+.+..  =++...+..+.+..  ...+.....+.+.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L-~-~~G-kkVglI~aD-t~RiaAvEQLk~yae~lgipv~--v~~d~~~L~~aL~  313 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF-H-GKK-KTVGFITTD-HSRIGTVQQLQDYVKTIGFEVI--AVRDEAAMTRALT  313 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH-H-HcC-CcEEEEecC-CcchHHHHHHHHHhhhcCCcEE--ecCCHHHHHHHHH
Confidence            45799999999999999999998776 2 222 234445433 222222  12223333333221  2335555555554


Q ss_pred             HHhc--CCcEEEe
Q 009534          245 KTMR--NTKFLIS  255 (532)
Q Consensus       245 ~~L~--~kr~LlV  255 (532)
                      ..-.  +..++||
T Consensus       314 ~lk~~~~~DvVLI  326 (436)
T PRK11889        314 YFKEEARVDYILI  326 (436)
T ss_pred             HHHhccCCCEEEE
Confidence            4322  4688888

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=94.48  E-value=0.028  Score=51.91  Aligned_cols=23  Identities=39%  Similarity=0.648  Sum_probs=20.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+|.|..|+||||+|+.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999997764

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=94.47  E-value=2  Score=49.04  Aligned_cols=46  Identities=28%  Similarity=0.482  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHhcc--------C-CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE--------E-PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--------~-~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.+..++.+.+.+..        + ...++.++|+.|+|||++|+.+.+..
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4679999999888888753        1 12578899999999999999998876

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=94.44  E-value=0.14  Score=55.90  Aligned_cols=46  Identities=24%  Similarity=0.291  Sum_probs=39.4

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++||.+..++.|.+++..++ .+.+-++|..|+||||+|+.+.+..
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaL   62 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKAL   62 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999998775 4566799999999999999887766

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=94.39  E-value=0.089  Score=57.18  Aligned_cols=75  Identities=12%  Similarity=0.158  Sum_probs=57.4

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcC
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGL  226 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~  226 (532)
                      +.++|.++.++.+...+..+  +.+-++|..|+||||+|+.+.....  ..+|+...|..- .......+.+.+...++.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~--~~~~~~~~~~~n-p~~~~~~~~~~v~~~~G~  105 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP--KEELQDILVYPN-PEDPNNPKIRTVPAGKGK  105 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC--hHhHHHheEeeC-CCcchHHHHHHHHHhcCH
Confidence            46799998888888877664  4688899999999999999988762  334677888655 444777788888776654

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=94.37  E-value=0.014  Score=57.89  Aligned_cols=80  Identities=16%  Similarity=0.246  Sum_probs=63.7

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      +++|++|++++ +.++.+....|..+.+++.|.+.. ..++.+......          ++.+|+.|++++++++.+.| 
T Consensus       273 L~~L~~lnlsn-N~i~~i~~~aFe~~a~l~eL~L~~-N~l~~v~~~~f~----------~ls~L~tL~L~~N~it~~~~~  340 (498)
T KOG4237|consen  273 LPNLRKLNLSN-NKITRIEDGAFEGAAELQELYLTR-NKLEFVSSGMFQ----------GLSGLKTLSLYDNQITTVAPG  340 (498)
T ss_pred             cccceEeccCC-CccchhhhhhhcchhhhhhhhcCc-chHHHHHHHhhh----------ccccceeeeecCCeeEEEecc
Confidence            67799999988 458888777788888999999887 477777665554          68899999999998888765 


Q ss_pred             -hhcCCCcceeeec
Q 009534          401 -LILAPNLKLIQMY  413 (532)
Q Consensus       401 -l~~l~~L~~L~l~  413 (532)
                       +..+..|.+|.+.
T Consensus       341 aF~~~~~l~~l~l~  354 (498)
T KOG4237|consen  341 AFQTLFSLSTLNLL  354 (498)
T ss_pred             cccccceeeeeehc
Confidence             6677888888876

>PRK08116 hypothetical protein; Validated

Probab=94.36  E-value=0.15  Score=49.46  Aligned_cols=70  Identities=24%  Similarity=0.285  Sum_probs=43.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMR  248 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~  248 (532)
                      .-+-++|..|+|||.||.++++...   .+-..+++++      ..+++..+.......    ...+    ...+.+.+.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~---~~~~~v~~~~------~~~ll~~i~~~~~~~----~~~~----~~~~~~~l~  177 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELI---EKGVPVIFVN------FPQLLNRIKSTYKSS----GKED----ENEIIRSLV  177 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEE------HHHHHHHHHHHHhcc----cccc----HHHHHHHhc
Confidence            4578999999999999999999983   2234556664      444555555544321    1111    223445566


Q ss_pred             CCcEEEe
Q 009534          249 NTKFLIS  255 (532)
Q Consensus       249 ~kr~LlV  255 (532)
                      +-.+|++
T Consensus       178 ~~dlLvi  184 (268)
T PRK08116        178 NADLLIL  184 (268)
T ss_pred             CCCEEEE
Confidence            6667666

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=94.34  E-value=0.077  Score=45.36  Aligned_cols=39  Identities=26%  Similarity=0.351  Sum_probs=29.7

Q ss_pred             HHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          154 STLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       154 ~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++.+++.+.+..  ..-.+|.+.|.-|+||||+++.+....
T Consensus         6 ~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         6 KAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            344555555543  245689999999999999999999987

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.

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

Probab=94.30  E-value=0.066  Score=55.54  Aligned_cols=46  Identities=28%  Similarity=0.405  Sum_probs=37.1

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.|.++.++++.+.+.-             ...+-+.++|+.|+|||++|+++.+..
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el  241 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET  241 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            3568899999988887631             134567789999999999999999987

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=94.30  E-value=0.061  Score=46.65  Aligned_cols=39  Identities=21%  Similarity=0.346  Sum_probs=28.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      ++|.|+|..|+|||||++.+.+...  +..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~--~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK--RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH--HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh--HcCCceEEEEEccC
Confidence            4799999999999999999999983  34566555665544

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=94.26  E-value=0.084  Score=56.60  Aligned_cols=45  Identities=22%  Similarity=0.289  Sum_probs=38.1

Q ss_pred             cccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++|.+..++.+...+......-+-|+|..|+|||++|+.+++..
T Consensus        66 ~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999888766655667789999999999999998753

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=94.24  E-value=0.078  Score=50.25  Aligned_cols=39  Identities=26%  Similarity=0.353  Sum_probs=30.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVS  208 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~  208 (532)
                      ..+.+-++|+.|+|||+|++++.+...   .....+.|+++.
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~---~~~~~~~y~~~~   76 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYL---LNQRTAIYIPLS   76 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEeeHH
Confidence            346789999999999999999999873   233456777764

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

Probab=94.22  E-value=0.11  Score=44.77  Aligned_cols=43  Identities=33%  Similarity=0.229  Sum_probs=31.6

Q ss_pred             EEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHH
Q 009534          171 VGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      |-++|..|+|||++|+.+....-      ....-+.++...+..++...
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~------~~~~~i~~~~~~~~~dl~g~   44 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLG------RPVIRINCSSDTTEEDLIGS   44 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHT------CEEEEEE-TTTSTHHHHHCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh------cceEEEEeccccccccceee
Confidence            46899999999999999998871      13334567777777776654

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.

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

Probab=94.20  E-value=0.14  Score=52.38  Aligned_cols=46  Identities=20%  Similarity=0.241  Sum_probs=38.1

Q ss_pred             CcccccHHHHHHHHHHhccC--------------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEE--------------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~--------------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+..++...              ..+-|-++|+.|+|||++|+.+....
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999999988887430              14678899999999999999998876

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.16  E-value=0.06  Score=59.83  Aligned_cols=46  Identities=26%  Similarity=0.359  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhccCCce-EEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVG-IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++||.+.-++.+.+++..+++. .+-++|+.|+||||+|+.+....
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~L   62 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGL   62 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            46899999999999999877654 45899999999999999999887

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=94.15  E-value=0.062  Score=53.90  Aligned_cols=46  Identities=20%  Similarity=0.292  Sum_probs=40.4

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+||.++.+..+...+.++++.-+-|.|..|+||||+|+.+++-.
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            5689999999999988888777767799999999999999997765

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=94.13  E-value=0.16  Score=55.25  Aligned_cols=75  Identities=15%  Similarity=0.143  Sum_probs=52.5

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcC
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGL  226 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~  226 (532)
                      +.++|.++.++.+...+..+.  -+-++|+.|+||||+|+.+.+...  ...|...+++.- .......+++.+...++.
T Consensus        18 ~~viG~~~a~~~l~~a~~~~~--~~ll~G~pG~GKT~la~~la~~l~--~~~~~~~~~~~n-~~~~~~~~~~~v~~~~g~   92 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQKR--NVLLIGEPGVGKSMLAKAMAELLP--DEELEDILVYPN-PEDPNMPRIVEVPAGEGR   92 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcCC--CEEEECCCCCCHHHHHHHHHHHcC--chhheeEEEEeC-CCCCchHHHHHHHHhhch
Confidence            467899988887777776643  444899999999999999998872  223444444432 333556667887777764

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

>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=94.13  E-value=0.12  Score=46.97  Aligned_cols=23  Identities=39%  Similarity=0.736  Sum_probs=21.5

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+|.|..|+||||+|+.+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999886

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.12  E-value=0.066  Score=56.25  Aligned_cols=45  Identities=27%  Similarity=0.297  Sum_probs=38.5

Q ss_pred             CcccccHHHHHHHHHHhccCCce-EEEEecCCCCcHHHHHHHHHHh
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVG-IVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      .++||.+..++.+.+.+..+++. -+-++|+.|+||||+|+.+...
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~   58 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLC   58 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHH
Confidence            46899999999888888877654 7889999999999999998764

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.09  E-value=0.16  Score=51.92  Aligned_cols=25  Identities=28%  Similarity=0.438  Sum_probs=22.2

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++.++|++|+||||++..+....
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999998654

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=94.07  E-value=0.041  Score=50.20  Aligned_cols=23  Identities=39%  Similarity=0.602  Sum_probs=21.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+|.|..|+||||+|+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998876

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.

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.06  E-value=0.16  Score=42.84  Aligned_cols=76  Identities=17%  Similarity=0.242  Sum_probs=35.8

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCC--c
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT--W  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~--~  400 (532)
                      ++|+.+.+..  .+..++...+.++++|+.+.+.+  .++.++.....          .+++|+.+.+.+ .+..++  .
T Consensus        12 ~~l~~i~~~~--~~~~I~~~~F~~~~~l~~i~~~~--~~~~i~~~~F~----------~~~~l~~i~~~~-~~~~i~~~~   76 (129)
T PF13306_consen   12 SNLESITFPN--TIKKIGENAFSNCTSLKSINFPN--NLTSIGDNAFS----------NCKSLESITFPN-NLKSIGDNA   76 (129)
T ss_dssp             TT--EEEETS--T--EE-TTTTTT-TT-SEEEESS--TTSCE-TTTTT----------T-TT-EEEEETS-TT-EE-TTT
T ss_pred             CCCCEEEECC--CeeEeChhhcccccccccccccc--cccccceeeee----------cccccccccccc-ccccccccc
Confidence            4566666653  46666666666666777777655  35555544333          455667777754 222222  2


Q ss_pred             hhcCCCcceeeec
Q 009534          401 LILAPNLKLIQMY  413 (532)
Q Consensus       401 l~~l~~L~~L~l~  413 (532)
                      +..+++|+.+.+.
T Consensus        77 F~~~~~l~~i~~~   89 (129)
T PF13306_consen   77 FSNCTNLKNIDIP   89 (129)
T ss_dssp             TTT-TTECEEEET
T ss_pred             ccccccccccccC
Confidence            4456667666663

>PRK00625 shikimate kinase; Provisional

Probab=94.06  E-value=0.045  Score=49.33  Aligned_cols=23  Identities=26%  Similarity=0.340  Sum_probs=20.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.++||.|+||||+++.+.++.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998876

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=94.06  E-value=0.16  Score=48.28  Aligned_cols=51  Identities=18%  Similarity=0.249  Sum_probs=37.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCC----CCeEEEEEeCCCCCHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNN----FDFVIWEVVSRDLQLGKIQE  218 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~v~~~~~~~~l~~  218 (532)
                      .-.++.|+|.+|+|||++|..+.-.. .....    -..++|++....++...+.+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~~   72 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLVQ   72 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHHH
Confidence            46789999999999999999997544 11221    36899999877776654433

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=94.02  E-value=0.1  Score=51.13  Aligned_cols=45  Identities=22%  Similarity=0.361  Sum_probs=31.3

Q ss_pred             cccccHHHHHHHHHHhc---c-------C-----CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLT---E-------E-----PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~---~-------~-----~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.++.++.|.++..   .       +     ...-+-++|..|+|||++|+.+....
T Consensus        23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHH
Confidence            46887777666655421   1       0     12247789999999999998887766

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.

>PRK13975 thymidylate kinase; Provisional

Probab=93.98  E-value=0.051  Score=50.02  Aligned_cols=24  Identities=25%  Similarity=0.415  Sum_probs=22.6

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..|.|.|+.|+||||+|+.+....
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999988

>PRK00131 aroK shikimate kinase; Reviewed

Probab=93.98  E-value=0.054  Score=48.65  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|.++|+.|+||||+|+.+....
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999887

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

Probab=93.97  E-value=0.051  Score=49.27  Aligned_cols=24  Identities=29%  Similarity=0.452  Sum_probs=21.7

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.|.|+.|+||||+++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999998875

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=93.95  E-value=0.071  Score=51.32  Aligned_cols=62  Identities=21%  Similarity=0.295  Sum_probs=44.7

Q ss_pred             HHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHH
Q 009534          157 DRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       157 ~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      .+++..+..  ++..+|+|.|.+|+||+||.-.+-... ..+++=-.++=|+-|+.+.-..++.+
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~TGGsiLGD  101 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFTGGSILGD  101 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCCCcccccc
Confidence            445555543  578899999999999999999988877 44455455666666777766555544

>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=93.95  E-value=0.052  Score=50.07  Aligned_cols=53  Identities=19%  Similarity=0.150  Sum_probs=36.0

Q ss_pred             ccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          151 GLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       151 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      .+..+-...++.|.  +..++.+.|++|+|||.||.+..-+. -..+.|+..+++.
T Consensus         4 p~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~R   56 (205)
T PF02562_consen    4 PKNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITR   56 (205)
T ss_dssp             --SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE
T ss_pred             CCCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEe
Confidence            44555666677776  46799999999999999999987665 2347888888774

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.93  E-value=0.079  Score=57.30  Aligned_cols=46  Identities=26%  Similarity=0.372  Sum_probs=39.2

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++||-+.-++.+.+++..++. +.+-++|..|+||||+|+.+....
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~L   62 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSL   62 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999989999999988765 667899999999999999996655

>PRK12377 putative replication protein; Provisional

Probab=93.92  E-value=0.26  Score=47.18  Aligned_cols=70  Identities=19%  Similarity=0.244  Sum_probs=44.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKT  246 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  246 (532)
                      +..-+.++|..|+|||+||.++.+...   .....+.++++.      ++...+-.....      ...    ...+.+.
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~---~~g~~v~~i~~~------~l~~~l~~~~~~------~~~----~~~~l~~  160 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLL---AKGRSVIVVTVP------DVMSRLHESYDN------GQS----GEKFLQE  160 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEEEHH------HHHHHHHHHHhc------cch----HHHHHHH
Confidence            346788999999999999999999983   333445666443      455554443321      111    1234555


Q ss_pred             hcCCcEEEe
Q 009534          247 MRNTKFLIS  255 (532)
Q Consensus       247 L~~kr~LlV  255 (532)
                      +..-.+|++
T Consensus       161 l~~~dLLiI  169 (248)
T PRK12377        161 LCKVDLLVL  169 (248)
T ss_pred             hcCCCEEEE
Confidence            677777777

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=93.90  E-value=0.068  Score=49.80  Aligned_cols=31  Identities=23%  Similarity=0.415  Sum_probs=27.0

Q ss_pred             HhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          162 CLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       162 ~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+...++++|+++|..|+|||||..++....
T Consensus        16 ~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        16 RLDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             HhhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445689999999999999999999998875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>COG3899 Predicted ATPase [General function prediction only]

Probab=93.88  E-value=0.17  Score=57.22  Aligned_cols=45  Identities=18%  Similarity=0.400  Sum_probs=40.2

Q ss_pred             cccccHHHHHHHHHHhcc---CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLTE---EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++||+.+++.+...+.+   +.-.++.+.|..|||||++++.|....
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i   48 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPI   48 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHH
Confidence            368999999999998864   467799999999999999999999988

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.88  E-value=0.36  Score=48.75  Aligned_cols=84  Identities=19%  Similarity=0.114  Sum_probs=50.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC-CHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL-QLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~-~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      +.+++.++|+.|+||||++..+..... .+  -..+.+|+..... ...+-++..++.++.+..  ...+..+....+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~-~~--g~~V~lItaDtyR~gAveQLk~yae~lgvpv~--~~~dp~dL~~al~~  279 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLL-KQ--NRTVGFITTDTFRSGAVEQFQGYADKLDVELI--VATSPAELEEAVQY  279 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-Hc--CCeEEEEeCCccCccHHHHHHHHhhcCCCCEE--ecCCHHHHHHHHHH
Confidence            468999999999999999999987662 22  2356667654322 223334444454444321  23455555554443


Q ss_pred             Hh--cCCcEEEe
Q 009534          246 TM--RNTKFLIS  255 (532)
Q Consensus       246 ~L--~~kr~LlV  255 (532)
                      .-  .+..++||
T Consensus       280 l~~~~~~D~VLI  291 (407)
T PRK12726        280 MTYVNCVDHILI  291 (407)
T ss_pred             HHhcCCCCEEEE
Confidence            32  45688888

>PRK06217 hypothetical protein; Validated

Probab=93.88  E-value=0.05  Score=49.60  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=21.4

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|..|.||||+|+.+....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999999886

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=93.87  E-value=0.062  Score=48.22  Aligned_cols=26  Identities=27%  Similarity=0.487  Sum_probs=23.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+++|+|..|+|||||++.+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            46799999999999999999999887

>PRK07952 DNA replication protein DnaC; Validated

Probab=93.87  E-value=3.4  Score=39.47  Aligned_cols=70  Identities=19%  Similarity=0.283  Sum_probs=43.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTM  247 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L  247 (532)
                      ...+-++|.+|+|||+||.++.+...   ..-..+++++      ..++...+-.....     ...+    ...+.+.+
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~---~~g~~v~~it------~~~l~~~l~~~~~~-----~~~~----~~~~l~~l  160 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELL---LRGKSVLIIT------VADIMSAMKDTFSN-----SETS----EEQLLNDL  160 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEE------HHHHHHHHHHHHhh-----cccc----HHHHHHHh
Confidence            45788999999999999999999883   2234556663      34455554443321     1111    12344456


Q ss_pred             cCCcEEEe
Q 009534          248 RNTKFLIS  255 (532)
Q Consensus       248 ~~kr~LlV  255 (532)
                      ..-.+|+|
T Consensus       161 ~~~dlLvI  168 (244)
T PRK07952        161 SNVDLLVI  168 (244)
T ss_pred             ccCCEEEE
Confidence            66677777

>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=93.86  E-value=0.048  Score=47.41  Aligned_cols=23  Identities=26%  Similarity=0.525  Sum_probs=21.2

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|.|.|..|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=93.85  E-value=0.071  Score=56.41  Aligned_cols=46  Identities=24%  Similarity=0.274  Sum_probs=39.3

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+..++.+...+..++ .+-+-++|+.|+||||+|+.+....
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~L   67 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAV   67 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            357999999999888887765 3578899999999999999998876

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=93.85  E-value=0.047  Score=49.65  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=21.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|.|+|++|+||||+|+.+....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            57899999999999999998876

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.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=93.83  E-value=0.16  Score=49.37  Aligned_cols=33  Identities=27%  Similarity=0.267  Sum_probs=28.0

Q ss_pred             HHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          160 WRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       160 ~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++...+..++.|.|..|.|||||...+.+..
T Consensus        96 r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463         96 RARFAARKQLVLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             HHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            334444689999999999999999999999986

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.81  E-value=0.09  Score=53.75  Aligned_cols=46  Identities=22%  Similarity=0.309  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+.+.+..+.. +.+-++|+.|+||||+|+.+.+..
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l   63 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKI   63 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999987654 578899999999999999997776

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=93.80  E-value=0.033  Score=52.41  Aligned_cols=134  Identities=19%  Similarity=0.148  Sum_probs=80.0

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC--cccc-CCc-
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS--KLRH-VTW-  400 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c--~L~~-l~~-  400 (532)
                      .+.+.+.+|.+...-.......+.+|+.|.+.++. +.++  ..          ...+++|++|.++.+  +... ++. 
T Consensus        20 v~~l~lD~~~s~~g~~~gl~d~~~~le~ls~~n~g-ltt~--~~----------~P~Lp~LkkL~lsdn~~~~~~~l~vl   86 (260)
T KOG2739|consen   20 VDELFLDNARSGAGKLGGLTDEFVELELLSVINVG-LTTL--TN----------FPKLPKLKKLELSDNYRRVSGGLEVL   86 (260)
T ss_pred             hhhhhcchhhhcCCCcccccccccchhhhhhhccc-eeec--cc----------CCCcchhhhhcccCCcccccccceeh
Confidence            45556666544331111113345677888777653 2222  11          235889999999888  4333 433 


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC----CCcCCCCccEEeecCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP----RALPFPHLKELHVTLC  476 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~----~~~~~p~L~~L~i~~C  476 (532)
                      +..+|+|++|++++.. +..+..           ...+..+.+|..|++.+|+-.. +-.    -..-+|+|++|+..++
T Consensus        87 ~e~~P~l~~l~ls~Nk-i~~lst-----------l~pl~~l~nL~~Ldl~n~~~~~-l~dyre~vf~ll~~L~~LD~~dv  153 (260)
T KOG2739|consen   87 AEKAPNLKVLNLSGNK-IKDLST-----------LRPLKELENLKSLDLFNCSVTN-LDDYREKVFLLLPSLKYLDGCDV  153 (260)
T ss_pred             hhhCCceeEEeecCCc-cccccc-----------cchhhhhcchhhhhcccCCccc-cccHHHHHHHHhhhhcccccccc
Confidence            4567999999997643 333211           1245567888899999987554 211    1234789999998887


Q ss_pred             CCCCCCCC
Q 009534          477 PKLKKLPF  484 (532)
Q Consensus       477 ~~L~~lp~  484 (532)
                      ..=+..+.
T Consensus       154 ~~~Ea~~~  161 (260)
T KOG2739|consen  154 DGEEAPEA  161 (260)
T ss_pred             CCcccccc
Confidence            66554443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=93.79  E-value=0.08  Score=57.45  Aligned_cols=46  Identities=28%  Similarity=0.382  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+.+++..+++ +.+-++|..|+||||+|+.+....
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~L   62 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSL   62 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            4689999999999999988764 568899999999999999987764

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=93.79  E-value=0.091  Score=53.35  Aligned_cols=46  Identities=15%  Similarity=0.261  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++.+.+++..++ .+.+-++|+.|+||||+|+.+....
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l   60 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKAL   60 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            457999999999999998765 4567889999999999999998776

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.

>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=93.79  E-value=0.07  Score=46.92  Aligned_cols=36  Identities=25%  Similarity=0.189  Sum_probs=27.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      ..+|=|.|..|.||||||+++..+..   ..-..+.++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~---~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLF---ARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHH---HTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEec
Confidence            45788999999999999999999982   3334555554

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=93.77  E-value=0.098  Score=47.65  Aligned_cols=36  Identities=31%  Similarity=0.478  Sum_probs=29.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      .+++.|+|+.|+|||||++.+..+.   ...|...++-+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~---~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF---PDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS---TTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc---ccccccceeec
Confidence            5789999999999999999999987   46786555554

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 ....

>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=93.77  E-value=0.046  Score=46.03  Aligned_cols=28  Identities=43%  Similarity=0.501  Sum_probs=19.1

Q ss_pred             EEEecCCCCcHHHHHHHHHHhccCCCCCCCe
Q 009534          171 VGLYGMGGVGKTTLLTQINNSFLHTPNNFDF  201 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~  201 (532)
                      +-++|..|+||||+|+.+....   ...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~---~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSL---GLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHT---T--EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHc---CCceeE
Confidence            4589999999999999999887   466753

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=93.76  E-value=0.1  Score=52.33  Aligned_cols=46  Identities=20%  Similarity=0.276  Sum_probs=38.5

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+||.++.+..++-.+.++...-+.|.|..|+||||+++.+..-.
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            4579999999888777777666667799999999999999997654

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.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.75  E-value=0.081  Score=56.24  Aligned_cols=46  Identities=22%  Similarity=0.320  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++||-+.-++.+.+++..+++ +.+-++|+.|+||||+|+.+....
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCL   62 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999987764 457899999999999999998876

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.72  E-value=0.067  Score=48.29  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999999887

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.70  E-value=0.081  Score=56.90  Aligned_cols=46  Identities=28%  Similarity=0.380  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++||.+.-++.+.+++..+++ +.+-++|..|+||||+|+.+.+..
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaL   62 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSL   62 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999988764 567889999999999999998776

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=93.70  E-value=0.047  Score=28.51  Aligned_cols=17  Identities=35%  Similarity=0.651  Sum_probs=9.7

Q ss_pred             CCccEEeecCCCCCCCCC
Q 009534          466 PHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       466 p~L~~L~i~~C~~L~~lp  483 (532)
                      ++|+.|++++|. |+++|
T Consensus         1 ~~L~~L~l~~n~-L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNR-LTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCCC-CCCCc
Confidence            467788888877 77766

...

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.69  E-value=0.29  Score=51.31  Aligned_cols=83  Identities=18%  Similarity=0.193  Sum_probs=46.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCC--HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQ--LGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~--~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      .+|++++|+.|+||||.+..+.... ..+..-..+..|+.. .+.  ..+-++...+.++.+..  ...+..+.... ..
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~-~~~~G~~kV~LI~~D-t~RigA~EQLr~~AeilGVpv~--~~~~~~Dl~~a-L~  330 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARC-VMRHGASKVALLTTD-SYRIGGHEQLRIYGKILGVPVH--AVKDAADLRLA-LS  330 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHH-HHhcCCCeEEEEeCC-ccchhHHHHHHHHHHHhCCCee--ccCCchhHHHH-HH
Confidence            4799999999999999999998766 222222244555432 232  22333344444444321  11222223322 24


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      .+.++.+.+|
T Consensus       331 ~L~d~d~VLI  340 (484)
T PRK06995        331 ELRNKHIVLI  340 (484)
T ss_pred             hccCCCeEEe
Confidence            5677888888

>TIGR03689 pup_AAA proteasome ATPase

Probab=93.69  E-value=0.08  Score=55.88  Aligned_cols=46  Identities=30%  Similarity=0.480  Sum_probs=37.3

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.|.++.++.+.+.+..             ...+-+-++|+.|+|||++|+++++..
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL  240 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSL  240 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhh
Confidence            3567899999998887632             134558889999999999999999987

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.

>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=93.68  E-value=0.081  Score=50.13  Aligned_cols=63  Identities=17%  Similarity=0.207  Sum_probs=37.9

Q ss_pred             HHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHH
Q 009534          155 TLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQE  218 (532)
Q Consensus       155 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~  218 (532)
                      ...++++.+..  ++..+|+|.|.+|+||+||...+.... ..+++=-.++=|+-++.++-..++.
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~-~~~g~~VaVlAVDPSSp~tGGAlLG   78 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIREL-RERGKRVAVLAVDPSSPFTGGALLG   78 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHH-HHTT--EEEEEE-GGGGCC---SS-
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHH-hhcCCceEEEEECCCCCCCCCcccc
Confidence            44556666543  478899999999999999999988877 3333323455555566665555444

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.

>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=93.68  E-value=0.15  Score=46.88  Aligned_cols=23  Identities=30%  Similarity=0.596  Sum_probs=21.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999887

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.67  E-value=0.43  Score=49.16  Aligned_cols=85  Identities=18%  Similarity=0.212  Sum_probs=48.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR-DLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      +..+++++|..|+||||+...+.... ......+.+..+.... .....+-+....+-++.+..  ...+..+.. ....
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~-~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~--~v~~~~dl~-~al~  265 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARA-VIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVR--SIKDIADLQ-LMLH  265 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCcee--cCCCHHHHH-HHHH
Confidence            35799999999999999999887654 1112223444444322 11222223344444554332  223344443 3344


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      .+.++...+|
T Consensus       266 ~l~~~d~VLI  275 (420)
T PRK14721        266 ELRGKHMVLI  275 (420)
T ss_pred             HhcCCCEEEe
Confidence            5788888888

>TIGR03263 guanyl_kin guanylate kinase

Probab=93.63  E-value=0.055  Score=49.03  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=21.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|.|+|+.|+||||+++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999998865

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.56  E-value=0.43  Score=48.79  Aligned_cols=84  Identities=17%  Similarity=0.267  Sum_probs=49.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCC--CCCCeEEEEEeCCCCCHHH--HHHHHHHHhcCCCCCCCCCCHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTP--NNFDFVIWEVVSRDLQLGK--IQESIAKKIGLCNESWDSKSFDEKAQE  242 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--~~F~~~~wv~v~~~~~~~~--l~~~i~~~l~~~~~~~~~~~~~~~~~~  242 (532)
                      ..+++.++|..|+||||.+..+.... ...  .+-..+..++... +....  -++..++.++.+..  ...+..+....
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~-~~~~~~~g~~V~lit~Dt-~R~aa~eQL~~~a~~lgvpv~--~~~~~~~l~~~  248 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIY-GINSDDKSLNIKIITIDN-YRIGAKKQIQTYGDIMGIPVK--AIESFKDLKEE  248 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HhhhccCCCeEEEEeccC-ccHHHHHHHHHHhhcCCcceE--eeCcHHHHHHH
Confidence            46799999999999999999988766 211  1123455555443 33322  24444554554321  23344455444


Q ss_pred             HHHHhcCCcEEEe
Q 009534          243 IFKTMRNTKFLIS  255 (532)
Q Consensus       243 l~~~L~~kr~LlV  255 (532)
                      +.+ +.+..+++|
T Consensus       249 L~~-~~~~DlVLI  260 (388)
T PRK12723        249 ITQ-SKDFDLVLV  260 (388)
T ss_pred             HHH-hCCCCEEEE
Confidence            443 477778887

>PRK13947 shikimate kinase; Provisional

Probab=93.54  E-value=0.062  Score=48.26  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=21.1

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|+.|+||||+|+.+.+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            37899999999999999999887

>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=93.53  E-value=0.068  Score=44.57  Aligned_cols=22  Identities=32%  Similarity=0.537  Sum_probs=20.3

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|+|..|+|||||.+.+.+..
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            6899999999999999998776

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.

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=93.50  E-value=0.23  Score=41.90  Aligned_cols=114  Identities=14%  Similarity=0.181  Sum_probs=52.1

Q ss_pred             ccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccc
Q 009534          340 SVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRC  417 (532)
Q Consensus       340 ~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~  417 (532)
                      +...+..+++|+.+.+..  .++.+......          .+++|+.+++.+. +..++.  +..+++|+.+.+.+  .
T Consensus         4 ~~~~F~~~~~l~~i~~~~--~~~~I~~~~F~----------~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~--~   68 (129)
T PF13306_consen    4 GNNAFYNCSNLESITFPN--TIKKIGENAFS----------NCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN--N   68 (129)
T ss_dssp             -TTTTTT-TT--EEEETS--T--EE-TTTTT----------T-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS--T
T ss_pred             CHHHHhCCCCCCEEEECC--CeeEeChhhcc----------ccccccccccccc-ccccceeeeecccccccccccc--c
Confidence            334466666777777763  45555554433          5667888887763 444432  56676788887743  3


Q ss_pred             cccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          418 LEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       418 l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      +..+..            ..+..+++|+.+.+..  ++..++...+.-..|+.+.+.+  .++.++.
T Consensus        69 ~~~i~~------------~~F~~~~~l~~i~~~~--~~~~i~~~~f~~~~l~~i~~~~--~~~~i~~  119 (129)
T PF13306_consen   69 LKSIGD------------NAFSNCTNLKNIDIPS--NITEIGSSSFSNCNLKEINIPS--NITKIEE  119 (129)
T ss_dssp             T-EE-T------------TTTTT-TTECEEEETT--T-BEEHTTTTTT-T--EEE-TT--B-SS---
T ss_pred             cccccc------------ccccccccccccccCc--cccEEchhhhcCCCceEEEECC--CccEECC
Confidence            444443            2455577777777743  3555655433322677666653  5555544

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=93.48  E-value=0.26  Score=46.49  Aligned_cols=46  Identities=26%  Similarity=0.267  Sum_probs=36.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKI  216 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l  216 (532)
                      .-.++-|+|.+|+|||++|.++.....   ..-..++|++.. .++...+
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~---~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAA---KNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEECC-CCCHHHH
Confidence            467999999999999999999987763   334678999887 5555444

>PRK09087 hypothetical protein; Validated

Probab=93.46  E-value=0.16  Score=47.95  Aligned_cols=26  Identities=35%  Similarity=0.355  Sum_probs=22.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.+.|+|..|+|||+|++.++...
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~   68 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS   68 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc
Confidence            34668999999999999999988765

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.46  E-value=0.24  Score=51.48  Aligned_cols=83  Identities=23%  Similarity=0.268  Sum_probs=46.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCH--HHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQL--GKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      .+++.++|++|+||||++..+.... .....-..+..|+... +..  ..-++...+.++.+..  ...+..+....+. 
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~-~~~~~g~~V~li~~D~-~r~~a~eqL~~~a~~~~vp~~--~~~~~~~l~~~l~-  295 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY-ALLYGKKKVALITLDT-YRIGAVEQLKTYAKIMGIPVE--VVYDPKELAKALE-  295 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEECCc-cHHHHHHHHHHHHHHhCCceE--ccCCHHhHHHHHH-
Confidence            4699999999999999999887665 2012224566666433 221  1122222333333221  2233444554444 


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      .+.+..++||
T Consensus       296 ~~~~~DlVlI  305 (424)
T PRK05703        296 QLRDCDVILI  305 (424)
T ss_pred             HhCCCCEEEE
Confidence            3567788888

>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=93.45  E-value=0.11  Score=46.53  Aligned_cols=44  Identities=23%  Similarity=0.259  Sum_probs=31.3

Q ss_pred             ccccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          149 VVGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       149 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|....+.++++.+..  ....-|-|+|..|+||+.+|+.+++..
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            36777777777776643  223445599999999999999999965

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 ....

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=93.45  E-value=0.058  Score=44.37  Aligned_cols=22  Identities=32%  Similarity=0.700  Sum_probs=18.9

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |=|+|.+|+|||++|+.+..+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            3489999999999999977666

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

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=93.45  E-value=0.19  Score=48.69  Aligned_cols=50  Identities=18%  Similarity=0.123  Sum_probs=40.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIA  221 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~  221 (532)
                      .-+++.|.|.+|+|||+++.++.....   .+.+.++||+...  +..++.+...
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~---~~ge~vlyvs~~e--~~~~l~~~~~   71 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEGA---REGEPVLYVSTEE--SPEELLENAR   71 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHHH---hcCCcEEEEEecC--CHHHHHHHHH
Confidence            678999999999999999999888874   5588999998877  4445555443

>PRK13949 shikimate kinase; Provisional

Probab=93.44  E-value=0.068  Score=48.03  Aligned_cols=23  Identities=35%  Similarity=0.397  Sum_probs=21.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|+.|+||||+++.+....
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48899999999999999999887

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=93.42  E-value=0.062  Score=47.07  Aligned_cols=23  Identities=26%  Similarity=0.521  Sum_probs=20.2

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++.+.|+.|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            46789999999999999997764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

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

Probab=93.42  E-value=0.14  Score=49.46  Aligned_cols=62  Identities=16%  Similarity=0.168  Sum_probs=48.8

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEE-EEEeCC
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVI-WEVVSR  209 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~-wv~v~~  209 (532)
                      ++++|.+..++.+.+.+........-.+|+.|.|||+-|.+..... --.+.|.+++ -.++|.
T Consensus        36 de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L-~~~~~~~~rvl~lnaSd   98 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARAL-NCEQLFPCRVLELNASD   98 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHh-cCccccccchhhhcccc
Confidence            4679999999999999988788889999999999999999998887 3334565443 333444

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.42  E-value=0.1  Score=56.62  Aligned_cols=46  Identities=20%  Similarity=0.221  Sum_probs=39.3

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+.-++.+.+++..+++ +.+-++|+.|+||||+|+.+....
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L   62 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAV   62 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999998887665 558899999999999999988776

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=93.40  E-value=0.071  Score=48.16  Aligned_cols=24  Identities=21%  Similarity=0.385  Sum_probs=21.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|.+.|+.|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998775

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=93.40  E-value=0.13  Score=44.26  Aligned_cols=68  Identities=16%  Similarity=0.151  Sum_probs=38.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMR  248 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~  248 (532)
                      .=|-|.|-+|+||||++..+....     .   .-|+++++-..-..+....=+...     ...-+.+...+.|-..+.
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~-----~---~~~i~isd~vkEn~l~~gyDE~y~-----c~i~DEdkv~D~Le~~m~   74 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKT-----G---LEYIEISDLVKENNLYEGYDEEYK-----CHILDEDKVLDELEPLMI   74 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHh-----C---CceEehhhHHhhhcchhccccccc-----CccccHHHHHHHHHHHHh
Confidence            447789999999999999998665     2   336666553332222222111111     123345556666666554


Q ss_pred             C
Q 009534          249 N  249 (532)
Q Consensus       249 ~  249 (532)
                      +
T Consensus        75 ~   75 (176)
T KOG3347|consen   75 E   75 (176)
T ss_pred             c
Confidence            4

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=93.40  E-value=0.13  Score=54.70  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .--.|+|+|+.|+|||||.+.+....
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~  372 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGEL  372 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhc
Confidence            45679999999999999999997766

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=93.39  E-value=0.12  Score=53.05  Aligned_cols=46  Identities=11%  Similarity=0.166  Sum_probs=38.9

Q ss_pred             CcccccHHHHHHHHHHhccCC----------ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP----------VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~----------~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+.-++.+.+++..+.          .+-+-++|+.|+|||++|+.+....
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l   60 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAAL   60 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            468999999999999987653          4668899999999999999997765

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=93.36  E-value=0.11  Score=56.33  Aligned_cols=46  Identities=20%  Similarity=0.329  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+..++.+.+++..++. +-+-++|+.|+||||+|+.+....
T Consensus        24 ~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L   70 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARAL   70 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999987764 468899999999999999998866

>PRK00300 gmk guanylate kinase; Provisional

Probab=93.32  E-value=0.071  Score=49.47  Aligned_cols=26  Identities=27%  Similarity=0.295  Sum_probs=23.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+|+|+|+.|+||||||+.+....
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            35689999999999999999998875

>cd01878 HflX HflX subfamily

Probab=93.30  E-value=0.27  Score=45.48  Aligned_cols=27  Identities=26%  Similarity=0.402  Sum_probs=23.3

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +....|+|+|.+|+|||||.+.+.+..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            346789999999999999999988764

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=93.29  E-value=0.066  Score=47.32  Aligned_cols=20  Identities=35%  Similarity=0.640  Sum_probs=18.8

Q ss_pred             EEEEecCCCCcHHHHHHHHH
Q 009534          170 IVGLYGMGGVGKTTLLTQIN  189 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~  189 (532)
                      .|.|.|.+|+||||+++.+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999987

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

Probab=93.28  E-value=0.097  Score=57.40  Aligned_cols=46  Identities=24%  Similarity=0.368  Sum_probs=36.2

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||++++.++++.|....-.=-..+|-+|||||+++.-+..+.
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rI  215 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRI  215 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHH
Confidence            4579999999999999976421122347899999999998888776

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=93.25  E-value=0.11  Score=56.38  Aligned_cols=46  Identities=26%  Similarity=0.327  Sum_probs=39.6

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++||.+.-++.+.+.+..+++ +.+-++|..|+||||+|+.+....
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L   62 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGL   62 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999987765 456789999999999999998776

>PRK03846 adenylylsulfate kinase; Provisional

Probab=93.23  E-value=0.089  Score=48.63  Aligned_cols=27  Identities=19%  Similarity=0.377  Sum_probs=24.5

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+..+|.|+|+.|+||||+|+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999998876

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

Probab=93.23  E-value=0.28  Score=46.27  Aligned_cols=46  Identities=22%  Similarity=0.437  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHh----ccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCL----TEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L----~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+++-.    ......-+-+||..|+|||++++++.+..
T Consensus        27 ~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   27 DDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            56899999998887753    23345566779999999999999999988

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=93.22  E-value=0.17  Score=50.27  Aligned_cols=49  Identities=27%  Similarity=0.300  Sum_probs=33.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      .+++-+.|.|||||||+|-+..-...   .....+.-|+.....++.+++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA---~~g~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLA---ESGKKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHH---HcCCcEEEEEeCCCCchHhhhcc
Confidence            47899999999999999999655552   22244666666555555554443

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.21  E-value=0.38  Score=53.06  Aligned_cols=83  Identities=14%  Similarity=0.195  Sum_probs=51.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCC--HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQ--LGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~--~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      .+++.++|+.|+||||.+..+.... ........+..++.. .+.  ..+-++...+.++.+..  ...+..+..+.+ +
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~-~~~~G~kkV~lit~D-t~RigA~eQL~~~a~~~gvpv~--~~~~~~~l~~al-~  259 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC-VAREGADQLALLTTD-SFRIGALEQLRIYGRILGVPVH--AVKDAADLRFAL-A  259 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH-HHHcCCCeEEEecCc-ccchHHHHHHHHHHHhCCCCcc--ccCCHHHHHHHH-H
Confidence            4799999999999999999988766 211212345555433 233  34444555555555432  233555554444 4


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      .++++.++||
T Consensus       260 ~~~~~D~VLI  269 (767)
T PRK14723        260 ALGDKHLVLI  269 (767)
T ss_pred             HhcCCCEEEE
Confidence            5678889999

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=93.21  E-value=0.17  Score=46.96  Aligned_cols=43  Identities=28%  Similarity=0.460  Sum_probs=28.4

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHH
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLG  214 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~  214 (532)
                      .|+|.|-||+||||+|..+..... .++.|+ +.=|+...++++.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~-~~~~~~-VLvVDaDpd~nL~   44 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLL-SKGGYN-VLVVDADPDSNLP   44 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHH-hcCCce-EEEEeCCCCCChH
Confidence            689999999999999999666663 223244 3335444444443

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.19  E-value=0.12  Score=55.36  Aligned_cols=46  Identities=26%  Similarity=0.368  Sum_probs=39.6

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+.-++.+.+++..++. +.+-++|+.|+||||+|+.+....
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSL   62 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999987765 456899999999999999997766

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=93.16  E-value=0.29  Score=47.88  Aligned_cols=27  Identities=22%  Similarity=0.362  Sum_probs=24.1

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+-+|.|.|..|+||||+|..+.++.
T Consensus        90 ~~p~iIlI~G~sgsGKStlA~~La~~l  116 (301)
T PRK04220         90 KEPIIILIGGASGVGTSTIAFELASRL  116 (301)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356789999999999999999999887

>PRK15453 phosphoribulokinase; Provisional

Probab=93.15  E-value=0.59  Score=45.26  Aligned_cols=78  Identities=19%  Similarity=0.129  Sum_probs=43.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCC-eEEEEEeCCCC--CHHHHHHHHHH--HhcCCCCC--CCCCCHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFD-FVIWEVVSRDL--QLGKIQESIAK--KIGLCNES--WDSKSFDEK  239 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~v~~~~--~~~~l~~~i~~--~l~~~~~~--~~~~~~~~~  239 (532)
                      +..+|+|.|-.|+||||+|+.+.+.. .   +.. ..+.++....+  +-..+-..+..  .-+...+.  .+..+.+.+
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if-~---~~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL   79 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIF-R---RENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDEL   79 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-h---hcCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHH
Confidence            56799999999999999999998765 2   222 23444433222  33333222221  12211122  255566677


Q ss_pred             HHHHHHHhc
Q 009534          240 AQEIFKTMR  248 (532)
Q Consensus       240 ~~~l~~~L~  248 (532)
                      .+.++....
T Consensus        80 ~~~l~~l~~   88 (290)
T PRK15453         80 EQLFREYGE   88 (290)
T ss_pred             HHHHHHHhc
Confidence            777766544

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=93.13  E-value=0.7  Score=44.46  Aligned_cols=70  Identities=20%  Similarity=0.280  Sum_probs=46.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKT  246 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  246 (532)
                      +..=+.++|..|+|||.||.++.+...  +.. -.+.+++      ..++.+++......          .....+|.+.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~--~~g-~sv~f~~------~~el~~~Lk~~~~~----------~~~~~~l~~~  164 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL--KAG-ISVLFIT------APDLLSKLKAAFDE----------GRLEEKLLRE  164 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH--HcC-CeEEEEE------HHHHHHHHHHHHhc----------CchHHHHHHH
Confidence            567788999999999999999999983  222 3455663      44455555554432          1123345555


Q ss_pred             hcCCcEEEe
Q 009534          247 MRNTKFLIS  255 (532)
Q Consensus       247 L~~kr~LlV  255 (532)
                      +..-.+||+
T Consensus       165 l~~~dlLIi  173 (254)
T COG1484         165 LKKVDLLII  173 (254)
T ss_pred             hhcCCEEEE
Confidence            666777777

>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=93.12  E-value=0.08  Score=46.49  Aligned_cols=22  Identities=36%  Similarity=0.516  Sum_probs=20.2

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|+.|.||||+|+.+....
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6789999999999999998776

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.

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.11  E-value=0.12  Score=55.57  Aligned_cols=46  Identities=22%  Similarity=0.261  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+.-++.+.+++..+++ +.+-++|+.|+||||+|+.+....
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l   59 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSL   59 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999988764 457899999999999999998776

>PF13245 AAA_19: Part of AAA domain

Probab=93.10  E-value=0.22  Score=38.09  Aligned_cols=26  Identities=31%  Similarity=0.370  Sum_probs=18.4

Q ss_pred             CceEEEEecCCCCcHHHHH-HHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLL-TQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa-~~v~~~~  192 (532)
                      +.+++.|.|.+|.|||+++ ..+.+-.
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            4567888999999999544 4444433

>PRK06851 hypothetical protein; Provisional

Probab=93.08  E-value=1.4  Score=44.60  Aligned_cols=50  Identities=24%  Similarity=0.288  Sum_probs=34.5

Q ss_pred             cccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          150 VGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       150 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .|.-.-.+.+.    .+--+++.|.|..|+||||+++.++....  ...++...+=
T Consensus       200 ~G~~s~~~~l~----~~~~~~~~i~G~pG~GKstl~~~i~~~a~--~~G~~v~~~h  249 (367)
T PRK06851        200 KGAVDFVPSLT----EGVKNRYFLKGRPGTGKSTMLKKIAKAAE--ERGFDVEVYH  249 (367)
T ss_pred             CcHHhhHHhHh----cccceEEEEeCCCCCcHHHHHHHHHHHHH--hCCCeEEEEe
Confidence            45444444444    34468899999999999999999999883  3345444433

>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]

Probab=93.08  E-value=0.22  Score=46.24  Aligned_cols=49  Identities=16%  Similarity=0.158  Sum_probs=32.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      -..|+|-|+.|+||||.++.++... +  ...-.++|..-.....+.+..+.
T Consensus         3 g~fI~iEGiDGaGKTT~~~~L~~~l-~--~~g~~v~~trEP~~~~ige~iR~   51 (208)
T COG0125           3 GMFIVIEGIDGAGKTTQAELLKERL-E--ERGIKVVLTREPGGTPIGEKIRE   51 (208)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH-H--HcCCeEEEEeCCCCChHHHHHHH
Confidence            3579999999999999999999998 3  32224555544333334444444

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=93.04  E-value=0.12  Score=45.52  Aligned_cols=39  Identities=23%  Similarity=0.379  Sum_probs=29.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL  211 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~  211 (532)
                      ++.|+|..|+||||++..+.....   ..-..++|++.....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~---~~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIA---TKGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHH---hcCCEEEEEECCcch
Confidence            467999999999999999988872   233567788766543

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.

>PLN02924 thymidylate kinase

Probab=93.04  E-value=0.23  Score=46.71  Aligned_cols=53  Identities=15%  Similarity=0.281  Sum_probs=35.0

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAK  222 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~  222 (532)
                      -..|+|.|..|+||||+++.+.+.. .. ..+....+-.........+..+.++.
T Consensus        16 g~~IviEGiDGsGKsTq~~~L~~~l-~~-~g~~v~~~~ep~~~~~~g~~ir~~l~   68 (220)
T PLN02924         16 GALIVLEGLDRSGKSTQCAKLVSFL-KG-LGVAAELWRFPDRTTSVGQMISAYLS   68 (220)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-Hh-cCCCceeeeCCCCCChHHHHHHHHHh
Confidence            4689999999999999999999998 43 23444333222223345555555444

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=93.04  E-value=0.1  Score=49.33  Aligned_cols=86  Identities=17%  Similarity=0.206  Sum_probs=48.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE---------eCCCCCHHHH--HHHHHHHhcCCCCCC----
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV---------VSRDLQLGKI--QESIAKKIGLCNESW----  231 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~---------v~~~~~~~~l--~~~i~~~l~~~~~~~----  231 (532)
                      +..+|-++||+|.||||..+.++....   ..+..-.-|.         ..-..|+++.  .+.+.++....++.-    
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~---~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~Ts   94 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLH---AKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIVTS   94 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHh---hccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchhhh
Confidence            467888999999999999999999883   2232211111         2223355543  345667666543210    


Q ss_pred             ---CCCCHHHHHHHHHHHhcCCcEEEe
Q 009534          232 ---DSKSFDEKAQEIFKTMRNTKFLIS  255 (532)
Q Consensus       232 ---~~~~~~~~~~~l~~~L~~kr~LlV  255 (532)
                         .....++.+..|.+.-..-+|.||
T Consensus        95 LNLF~tk~dqv~~~iek~~~~~~~~li  121 (366)
T KOG1532|consen   95 LNLFATKFDQVIELIEKRAEEFDYVLI  121 (366)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccCEEEE
Confidence               011233444444454445567777

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=92.98  E-value=0.08  Score=45.74  Aligned_cols=23  Identities=43%  Similarity=0.733  Sum_probs=20.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|.|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999998875

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.

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=92.98  E-value=0.0087  Score=63.67  Aligned_cols=109  Identities=17%  Similarity=0.202  Sum_probs=65.1

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      +=+.|+-+++|+.|+++-.....+..+.       .+++|++|+|++ +.++.+|......+. |+.|.+++. .++++-
T Consensus       179 mD~SLqll~ale~LnLshNk~~~v~~Lr-------~l~~LkhLDlsy-N~L~~vp~l~~~gc~-L~~L~lrnN-~l~tL~  248 (1096)
T KOG1859|consen  179 MDESLQLLPALESLNLSHNKFTKVDNLR-------RLPKLKHLDLSY-NCLRHVPQLSMVGCK-LQLLNLRNN-ALTTLR  248 (1096)
T ss_pred             HHHHHHHHHHhhhhccchhhhhhhHHHH-------hccccccccccc-chhccccccchhhhh-heeeeeccc-HHHhhh
Confidence            4445666778888886533322222221       135588888876 446777654444433 777777763 444431


Q ss_pred             ecccCCccccccccCCCCCccEEEEeCC---ccccCCchhcCCCcceeeecccc
Q 009534          366 IDYAGGEVKRIRETHGFFSLHKVSIWGS---KLRHVTWLILAPNLKLIQMYDCR  416 (532)
Q Consensus       366 ~~~~~~~~~~~~~~~~l~~L~~L~l~~c---~L~~l~~l~~l~~L~~L~l~~c~  416 (532)
                      .            +.++.+|+.|+++.|   ...++.++..|..|..|.+.+.+
T Consensus       249 g------------ie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  249 G------------IENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             h------------HHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCc
Confidence            1            225778888888877   23335567778888888887655

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=92.97  E-value=0.23  Score=46.75  Aligned_cols=53  Identities=28%  Similarity=0.312  Sum_probs=30.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhccCC----CCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSFLHT----PNNFDFVIWEVVSRDLQLGKIQESIAK  222 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~~~~----~~~F~~~~wv~v~~~~~~~~l~~~i~~  222 (532)
                      +..|+|++|+||||++..+.....+.    ...-...+-++......+..+...+.+
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            78899999999998777666655110    123344444544554556666666555

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

Probab=92.96  E-value=0.23  Score=48.92  Aligned_cols=54  Identities=19%  Similarity=0.217  Sum_probs=42.0

Q ss_pred             CcccccHHHHHH---HHHHhccC--CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCe
Q 009534          147 PTVVGLQSTLDR---VWRCLTEE--PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDF  201 (532)
Q Consensus       147 ~~~vGr~~~~~~---l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~  201 (532)
                      +.+||..+..+.   +++++..+  .-+.|-|+|++|.|||+||-.+.... -..-.|..
T Consensus        39 dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eL-G~dvPF~~   97 (450)
T COG1224          39 DGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIAREL-GEDVPFVA   97 (450)
T ss_pred             CcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHh-CCCCCcee
Confidence            568997755544   67777766  46789999999999999999999988 54556643

>PRK14530 adenylate kinase; Provisional

Probab=92.95  E-value=0.088  Score=49.36  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=21.2

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|+|+.|+||||+|+.+....
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998776

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=92.95  E-value=0.25  Score=45.40  Aligned_cols=24  Identities=25%  Similarity=0.397  Sum_probs=22.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..|+|.|..|+||||+++.+.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999887

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.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=92.95  E-value=0.11  Score=48.01  Aligned_cols=25  Identities=32%  Similarity=0.312  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|.+|+||||+|+.+....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998876

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=92.94  E-value=0.099  Score=47.12  Aligned_cols=25  Identities=28%  Similarity=0.305  Sum_probs=22.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|.|+|+.|+||||+|+.+....
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3468999999999999999998876

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=92.94  E-value=0.088  Score=47.66  Aligned_cols=23  Identities=26%  Similarity=0.465  Sum_probs=21.1

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|-|.|.+|+||||+|+.+.++.
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47799999999999999999986

>PRK05642 DNA replication initiation factor; Validated

Probab=92.93  E-value=0.25  Score=46.98  Aligned_cols=38  Identities=21%  Similarity=0.359  Sum_probs=28.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeC
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVS  208 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~  208 (532)
                      ...+-|+|..|+|||.|++++.+...   ..-..++|++..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~---~~~~~v~y~~~~   82 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFE---QRGEPAVYLPLA   82 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH---hCCCcEEEeeHH
Confidence            36788999999999999999998762   222456777643

>TIGR01287 nifH nitrogenase iron protein

Probab=92.93  E-value=0.1  Score=50.92  Aligned_cols=40  Identities=23%  Similarity=0.326  Sum_probs=28.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL  211 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~  211 (532)
                      +.|+|.|-||+||||++..+.....  +..+ .++-|+.....
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La--~~G~-~VlliD~D~q~   40 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALA--EMGK-KVMIVGCDPKA   40 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHH--HCCC-eEEEEeCCCCC
Confidence            4789999999999999999988873  2233 34555554333

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=92.93  E-value=0.084  Score=48.22  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=21.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.|+|+.|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997765

>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=92.91  E-value=0.14  Score=45.34  Aligned_cols=36  Identities=22%  Similarity=0.337  Sum_probs=30.4

Q ss_pred             HHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          154 STLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       154 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++++.+.+.+   +++.++|..|+|||||...+..+.
T Consensus        24 ~g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            456777777764   899999999999999999998874

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=92.90  E-value=0.33  Score=50.29  Aligned_cols=50  Identities=28%  Similarity=0.367  Sum_probs=32.7

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKI  224 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l  224 (532)
                      ...+-|+|..|+|||+|++++++... .+..=..+++++      ..++...+...+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~-~~~~~~~v~yi~------~~~~~~~~~~~~  185 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEIL-ENNPNAKVVYVS------SEKFTNDFVNAL  185 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHH-HhCCCCcEEEEE------HHHHHHHHHHHH
Confidence            35688999999999999999999873 221112445553      334444555444

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).

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=92.86  E-value=0.16  Score=53.31  Aligned_cols=46  Identities=20%  Similarity=0.277  Sum_probs=40.0

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+.+++..++. +.+-++|+.|+||||+|+.+....
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l   63 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKAL   63 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4689999999999999987764 667889999999999999998766

>cd01394 radB RadB

Probab=92.86  E-value=0.41  Score=44.83  Aligned_cols=43  Identities=19%  Similarity=0.132  Sum_probs=32.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQ  212 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~  212 (532)
                      .-.++.|.|.+|+||||+|.++.....   ..-..++|++....+.
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~---~~g~~v~yi~~e~~~~   60 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETA---GQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEECCCCCH
Confidence            468899999999999999999887762   2334678887655443

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=92.86  E-value=0.077  Score=47.23  Aligned_cols=22  Identities=27%  Similarity=0.563  Sum_probs=19.7

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|+.|+||||+|+.+....
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998876

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.

>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=92.81  E-value=0.4  Score=43.06  Aligned_cols=23  Identities=35%  Similarity=0.538  Sum_probs=21.2

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++.++|++|+||||++..+....
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998876

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=92.81  E-value=0.17  Score=46.75  Aligned_cols=36  Identities=28%  Similarity=0.376  Sum_probs=27.6

Q ss_pred             HHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          157 DRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       157 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+.++.+...+-++..|.|.+|+||||+++.+....
T Consensus         7 ~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~   42 (196)
T PF13604_consen    7 REAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEAL   42 (196)
T ss_dssp             HHHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHH
Confidence            344444444456788899999999999999988777

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=92.80  E-value=0.027  Score=55.00  Aligned_cols=173  Identities=22%  Similarity=0.201  Sum_probs=94.0

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCcccccc-------------ccccccccc
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLT-------------LASLRHLEA  352 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~-------------l~~l~~L~~  352 (532)
                      +...|...++|+.++++-... ..+-......+.+++++|++|.+.+|- +.......             .++-+.|+.
T Consensus        84 l~~aL~~~~~L~~ldLSDNA~-G~~g~~~l~~ll~s~~~L~eL~L~N~G-lg~~ag~~l~~al~~l~~~kk~~~~~~Lrv  161 (382)
T KOG1909|consen   84 LSKALLGCPKLQKLDLSDNAF-GPKGIRGLEELLSSCTDLEELYLNNCG-LGPEAGGRLGRALFELAVNKKAASKPKLRV  161 (382)
T ss_pred             HHHHHhcCCceeEeecccccc-CccchHHHHHHHHhccCHHHHhhhcCC-CChhHHHHHHHHHHHHHHHhccCCCcceEE
Confidence            455677778999998653322 111111122223334678999998874 43332221             233345555


Q ss_pred             eeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc--CC----chhcCCCcceeeecccccccccccccc
Q 009534          353 LDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH--VT----WLILAPNLKLIQMYDCRCLEEIISLEK  426 (532)
Q Consensus       353 L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~--l~----~l~~l~~L~~L~l~~c~~l~~i~~~~~  426 (532)
                      +.... +.+++-+....      .......+.|+.+.+..+.+..  +.    .+.++|+|+.|++.+..--.+-..   
T Consensus       162 ~i~~r-Nrlen~ga~~~------A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~---  231 (382)
T KOG1909|consen  162 FICGR-NRLENGGATAL------AEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSV---  231 (382)
T ss_pred             EEeec-cccccccHHHH------HHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHH---
Confidence            55543 12332211100      0112245788999888884433  31    267899999999976432111100   


Q ss_pred             ccCcCcccCcccccccccceeeccccccccccCC------CCcCCCCccEEeecCCC
Q 009534          427 LGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP------RALPFPHLKELHVTLCP  477 (532)
Q Consensus       427 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~------~~~~~p~L~~L~i~~C~  477 (532)
                        .    -...+..+|.|+.|++.+|- |+.=..      -....|+|+.|.+.+|.
T Consensus       232 --~----LakaL~s~~~L~El~l~dcl-l~~~Ga~a~~~al~~~~p~L~vl~l~gNe  281 (382)
T KOG1909|consen  232 --A----LAKALSSWPHLRELNLGDCL-LENEGAIAFVDALKESAPSLEVLELAGNE  281 (382)
T ss_pred             --H----HHHHhcccchheeecccccc-cccccHHHHHHHHhccCCCCceeccCcch
Confidence              0    01256678899999999983 332211      11238899999988875

>PRK13695 putative NTPase; Provisional

Probab=92.77  E-value=0.13  Score=46.45  Aligned_cols=34  Identities=29%  Similarity=0.462  Sum_probs=25.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .+.|+|..|+|||||++.+++.. .. ..+....|+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l-~~-~G~~~~g~~   35 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL-KE-EGYKVGGFY   35 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH-HH-CCCeEEEEE
Confidence            47899999999999999998876 32 235444454

>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=92.67  E-value=0.19  Score=50.01  Aligned_cols=74  Identities=18%  Similarity=0.386  Sum_probs=53.3

Q ss_pred             CcccccHHHHHHHHHHhcc------CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE----eCCCC---CH
Q 009534          147 PTVVGLQSTLDRVWRCLTE------EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV----VSRDL---QL  213 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~----v~~~~---~~  213 (532)
                      ..++|.++.++++++.+..      ..-+|+-.+|+.|.||||+|..+-.-.    ..|  .+|.-    +...+   =.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~l----e~y--~~Y~l~~~Pm~e~PL~L~P  134 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGL----EEY--PIYTLKGCPMHEEPLHLFP  134 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHh----heE--EEEEecCCccccChhhhCC
Confidence            4789999999999998864      367899999999999999999998877    334  44442    11111   13


Q ss_pred             HHHHHHHHHHhcC
Q 009534          214 GKIQESIAKKIGL  226 (532)
Q Consensus       214 ~~l~~~i~~~l~~  226 (532)
                      .++-+.+.+.++.
T Consensus       135 ~~~r~~~~~~~~~  147 (358)
T PF08298_consen  135 KELRREFEDELGI  147 (358)
T ss_pred             HhHHHHHHHHhCc
Confidence            4555556666665

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

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=92.66  E-value=0.38  Score=50.27  Aligned_cols=24  Identities=29%  Similarity=0.486  Sum_probs=22.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-+-|+|..|+|||+|++++.+..
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l  165 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHAL  165 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHH
Confidence            567899999999999999999987

>PRK13946 shikimate kinase; Provisional

Probab=92.66  E-value=0.1  Score=47.56  Aligned_cols=25  Identities=28%  Similarity=0.380  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+.|.++|+.|+||||+++.+.+..
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999999887

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=92.65  E-value=0.17  Score=47.87  Aligned_cols=36  Identities=25%  Similarity=0.335  Sum_probs=30.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEe
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVV  207 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v  207 (532)
                      -.++|+|..|.||||+...+....   ...|.++.+++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEEec
Confidence            357899999999999999999877   578988877753

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=92.63  E-value=0.097  Score=46.26  Aligned_cols=23  Identities=26%  Similarity=0.517  Sum_probs=21.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |++|+|+.|+||||++..+....
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l   23 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL   23 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999987

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.

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

Probab=92.61  E-value=0.19  Score=52.90  Aligned_cols=46  Identities=30%  Similarity=0.397  Sum_probs=37.9

Q ss_pred             CcccccHHHHHHHHHHhcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++-|.+..+.++.+++..            ...+=+-++|++|.|||.||+++.+..
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel  247 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL  247 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc
Confidence            4567899988888888753            145667899999999999999999988

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=92.58  E-value=0.16  Score=50.87  Aligned_cols=46  Identities=20%  Similarity=0.317  Sum_probs=36.3

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|.++.++.+.-.+.+.+..=+-+.|..|+||||+|+.+..-.
T Consensus         8 ~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          8 SAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             HHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            4679999988887765554444457899999999999999986654

>PRK14527 adenylate kinase; Provisional

Probab=92.57  E-value=0.12  Score=47.47  Aligned_cols=26  Identities=23%  Similarity=0.317  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|.|.|++|.||||+|+.+..+.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999998876

>TIGR02012 tigrfam_recA protein RecA

Probab=92.57  E-value=0.3  Score=48.49  Aligned_cols=74  Identities=18%  Similarity=0.129  Sum_probs=46.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCC---CCCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES---WDSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l  243 (532)
                      .-+++-|.|..|+||||||.++.....   ..-..++||+....++..     .+++++...+.   ....+.++....+
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~---~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~  125 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQ---KAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIA  125 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            457899999999999999998776662   334567899876655553     24444432211   1233455555555


Q ss_pred             HHHhc
Q 009534          244 FKTMR  248 (532)
Q Consensus       244 ~~~L~  248 (532)
                      ...++
T Consensus       126 ~~li~  130 (321)
T TIGR02012       126 ETLVR  130 (321)
T ss_pred             HHHhh
Confidence            55444

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>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=92.52  E-value=0.093  Score=45.07  Aligned_cols=25  Identities=36%  Similarity=0.537  Sum_probs=22.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.+++|+|..|+|||||.+.+....
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEEccCCCccccceeeecccc
Confidence            4689999999999999999987766

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 ....

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.52  E-value=0.17  Score=54.97  Aligned_cols=46  Identities=22%  Similarity=0.316  Sum_probs=39.4

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+.-++.+.+++..++. +.+-++|..|+||||+|+.+....
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l   62 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAV   62 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999998887654 556799999999999999998776

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=92.51  E-value=0.023  Score=55.56  Aligned_cols=139  Identities=15%  Similarity=0.066  Sum_probs=82.3

Q ss_pred             cCCCeEEEecCCCCCccccc----cccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccC
Q 009534          323 SNTPSLSLTNCRSLSSLSVL----TLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHV  398 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~----~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l  398 (532)
                      ++|+.+...+ +.+.+-+..    .+...+.|+.+.+..-..-.   .+. .   -.......+++|+.|+|.+|.++.-
T Consensus       157 ~~Lrv~i~~r-Nrlen~ga~~~A~~~~~~~~leevr~~qN~I~~---eG~-~---al~eal~~~~~LevLdl~DNtft~e  228 (382)
T KOG1909|consen  157 PKLRVFICGR-NRLENGGATALAEAFQSHPTLEEVRLSQNGIRP---EGV-T---ALAEALEHCPHLEVLDLRDNTFTLE  228 (382)
T ss_pred             cceEEEEeec-cccccccHHHHHHHHHhccccceEEEecccccC---chh-H---HHHHHHHhCCcceeeecccchhhhH
Confidence            5688888877 345544332    24556788888877532111   110 0   0011133689999999999955541


Q ss_pred             C------chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc-----CCCCcCCCC
Q 009534          399 T------WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-----YPRALPFPH  467 (532)
Q Consensus       399 ~------~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-----~~~~~~~p~  467 (532)
                      -      .+..+|+|+.|++.+|. ++.=....-...       --..+|+|+.|.+.++. ++.-     -......|.
T Consensus       229 gs~~LakaL~s~~~L~El~l~dcl-l~~~Ga~a~~~a-------l~~~~p~L~vl~l~gNe-It~da~~~la~~~~ek~d  299 (382)
T KOG1909|consen  229 GSVALAKALSSWPHLRELNLGDCL-LENEGAIAFVDA-------LKESAPSLEVLELAGNE-ITRDAALALAACMAEKPD  299 (382)
T ss_pred             HHHHHHHHhcccchheeecccccc-cccccHHHHHHH-------HhccCCCCceeccCcch-hHHHHHHHHHHHHhcchh
Confidence            1      27788999999999996 221111000000       11237999999988763 2111     113445899


Q ss_pred             ccEEeecCCCC
Q 009534          468 LKELHVTLCPK  478 (532)
Q Consensus       468 L~~L~i~~C~~  478 (532)
                      |++|++.+|.-
T Consensus       300 L~kLnLngN~l  310 (382)
T KOG1909|consen  300 LEKLNLNGNRL  310 (382)
T ss_pred             hHHhcCCcccc
Confidence            99999999854

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=92.50  E-value=0.089  Score=49.23  Aligned_cols=25  Identities=40%  Similarity=0.519  Sum_probs=22.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhcc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFL  193 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~  193 (532)
                      .-|.|+|++|+|||||+.++..+..
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~   30 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEF   30 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcC
Confidence            4688999999999999999988763

>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=92.48  E-value=0.11  Score=46.58  Aligned_cols=22  Identities=41%  Similarity=0.594  Sum_probs=19.4

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |-|.|..|+||||+.+.+.+..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            5789999999999999999887

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.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=92.47  E-value=0.33  Score=49.49  Aligned_cols=102  Identities=18%  Similarity=0.196  Sum_probs=57.3

Q ss_pred             HHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHH--HHHHHHHhcCCCCCCC
Q 009534          155 TLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKI--QESIAKKIGLCNESWD  232 (532)
Q Consensus       155 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l--~~~i~~~l~~~~~~~~  232 (532)
                      -.+.+++.+.......+-|.|.||+|||++.+++.+.. +.  .-..++.+ .+.......+  -..+...++.+.....
T Consensus         9 ~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~-~~--~~~~~~~~-a~tg~AA~~i~~G~T~hs~f~i~~~~~~   84 (364)
T PF05970_consen    9 VFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYL-RS--RGKKVLVT-APTGIAAFNIPGGRTIHSFFGIPINNNE   84 (364)
T ss_pred             HHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHh-cc--ccceEEEe-cchHHHHHhccCCcchHHhcCccccccc
Confidence            34555666666667788999999999999999999988 32  22233322 2222222222  1223333333321101


Q ss_pred             CCC-HHHHHHHHHHHhcCCcEEEe-hhhHH
Q 009534          233 SKS-FDEKAQEIFKTMRNTKFLIS-NLKML  260 (532)
Q Consensus       233 ~~~-~~~~~~~l~~~L~~kr~LlV-~lAm~  260 (532)
                      ... .......+++.++..++||+ ++.|.
T Consensus        85 ~~~~~~~~~~~~~~~l~~~~~lIiDEism~  114 (364)
T PF05970_consen   85 KSQCKISKNSRLRERLRKADVLIIDEISMV  114 (364)
T ss_pred             cccccccccchhhhhhhhheeeecccccch
Confidence            110 11234567788889999999 55544

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>PRK13948 shikimate kinase; Provisional

Probab=92.46  E-value=0.14  Score=46.59  Aligned_cols=26  Identities=31%  Similarity=0.512  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.|.++||.|+||||+++.+....
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45788999999999999999998876

>PRK00698 tmk thymidylate kinase; Validated

Probab=92.46  E-value=0.3  Score=45.19  Aligned_cols=25  Identities=20%  Similarity=0.400  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.+|+|.|+.|+||||+++.+.+..
T Consensus         3 ~~~I~ieG~~gsGKsT~~~~L~~~l   27 (205)
T PRK00698          3 GMFITIEGIDGAGKSTQIELLKELL   27 (205)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999998876

>PRK04182 cytidylate kinase; Provisional

Probab=92.45  E-value=0.12  Score=46.65  Aligned_cols=23  Identities=30%  Similarity=0.496  Sum_probs=21.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|.|.|+.|+||||+|+.+..+.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~l   24 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998876

>PRK14737 gmk guanylate kinase; Provisional

Probab=92.43  E-value=0.13  Score=46.95  Aligned_cols=26  Identities=15%  Similarity=0.291  Sum_probs=23.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.|.|+.|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            35789999999999999999998765

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=92.43  E-value=0.11  Score=48.68  Aligned_cols=26  Identities=27%  Similarity=0.345  Sum_probs=22.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            45689999999999999999986543

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=92.42  E-value=0.23  Score=50.21  Aligned_cols=47  Identities=21%  Similarity=0.259  Sum_probs=41.2

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhcc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSFL  193 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~  193 (532)
                      ..++|.++..+.+...+..++ .+.+-|+|+.|+||||+|..+.....
T Consensus        23 ~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Ll   70 (351)
T PRK09112         23 TRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHIL   70 (351)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHc
Confidence            467999999999999998775 45688999999999999999988874

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=92.42  E-value=0.17  Score=47.17  Aligned_cols=26  Identities=38%  Similarity=0.475  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            35689999999999999999998765

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.

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=92.41  E-value=0.081  Score=27.61  Aligned_cols=15  Identities=13%  Similarity=0.374  Sum_probs=5.6

Q ss_pred             CccEEEEeCCccccC
Q 009534          384 SLHKVSIWGSKLRHV  398 (532)
Q Consensus       384 ~L~~L~l~~c~L~~l  398 (532)
                      +|+.|+|++|+++.+
T Consensus         2 ~L~~L~l~~n~L~~l   16 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSL   16 (17)
T ss_dssp             T-SEEEETSS--SSE
T ss_pred             ccCEEECCCCCCCCC
Confidence            444555555444433

...

>PRK06835 DNA replication protein DnaC; Validated

Probab=92.41  E-value=8  Score=38.72  Aligned_cols=37  Identities=30%  Similarity=0.354  Sum_probs=28.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEe
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVV  207 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v  207 (532)
                      ..-+-++|..|+|||+||.++.+...   ..-..++++++
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~---~~g~~V~y~t~  219 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELL---DRGKSVIYRTA  219 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHH---HCCCeEEEEEH
Confidence            36799999999999999999999884   22235666653

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=92.40  E-value=0.17  Score=54.02  Aligned_cols=46  Identities=22%  Similarity=0.255  Sum_probs=33.7

Q ss_pred             CcccccHHHHHHHHHHhc---c---------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT---E---------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++++.+.+.   +         ...+=+-++|++|+|||++|+.+.+..
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~  112 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA  112 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc
Confidence            457888877666555442   2         123447789999999999999998876

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.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=92.40  E-value=0.17  Score=47.45  Aligned_cols=35  Identities=29%  Similarity=0.138  Sum_probs=27.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||++.+..-.    ....+.+++
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   62 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILGIE----KPTRGKIRF   62 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            34689999999999999999998865    233455554

>PRK06761 hypothetical protein; Provisional

Probab=92.38  E-value=0.18  Score=49.09  Aligned_cols=24  Identities=25%  Similarity=0.477  Sum_probs=22.6

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|.|.|+.|+||||+++.+.+..
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999999987

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=92.36  E-value=0.11  Score=46.26  Aligned_cols=21  Identities=29%  Similarity=0.412  Sum_probs=17.4

Q ss_pred             EEEecCCCCcHHHHHHHHHHh
Q 009534          171 VGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~  191 (532)
                      |+|.|..|+|||||++.+...
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            789999999999999999865

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=92.35  E-value=0.2  Score=48.67  Aligned_cols=39  Identities=23%  Similarity=0.373  Sum_probs=29.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVS  208 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~  208 (532)
                      +.+++.++|++|+||||.+..+.... .  ..-..+..++..
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l-~--~~g~~V~li~~D  109 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKL-K--KQGKSVLLAAGD  109 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-H--hcCCEEEEEeCC
Confidence            46899999999999999999988776 2  222355566543

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=92.31  E-value=0.14  Score=45.94  Aligned_cols=25  Identities=32%  Similarity=0.372  Sum_probs=22.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.++.|.|+.|+|||||++.++.+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4678899999999999999999874

>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=92.30  E-value=0.17  Score=47.40  Aligned_cols=26  Identities=31%  Similarity=0.379  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998765

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.

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=92.28  E-value=0.69  Score=44.43  Aligned_cols=79  Identities=13%  Similarity=0.071  Sum_probs=42.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC--CHHHHHHHHHHHhc--CCCCC--CCCCCHHHHHHHH
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL--QLGKIQESIAKKIG--LCNES--WDSKSFDEKAQEI  243 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~--~~~~l~~~i~~~l~--~~~~~--~~~~~~~~~~~~l  243 (532)
                      +|+|.|..|+||||+|+++.... ...+  ..++.++....+  +-...-..+.....  ..-+.  .+..+.+.+.+.+
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l-~~~g--~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l   77 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIF-AREG--IHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELF   77 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH-HhcC--CceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHH
Confidence            58999999999999999998776 2211  123444432222  22222222222221  11111  2455666677666


Q ss_pred             HHHhcCCc
Q 009534          244 FKTMRNTK  251 (532)
Q Consensus       244 ~~~L~~kr  251 (532)
                      +..-.++.
T Consensus        78 ~~L~~g~~   85 (277)
T cd02029          78 RTYGETGR   85 (277)
T ss_pred             HHHHcCCC
Confidence            66655443

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=92.27  E-value=0.31  Score=48.43  Aligned_cols=75  Identities=20%  Similarity=0.134  Sum_probs=46.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCC---CCCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES---WDSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l  243 (532)
                      .-+++-|+|++|+||||||..+.-...   ..-..++||+....++..     .++.++...+.   ....+.++....+
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~~---~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~  125 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEAQ---KLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA  125 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence            457888999999999999999776652   334578899877766653     23334332111   1233455555555


Q ss_pred             HHHhcC
Q 009534          244 FKTMRN  249 (532)
Q Consensus       244 ~~~L~~  249 (532)
                      ...++.
T Consensus       126 ~~li~s  131 (325)
T cd00983         126 DSLVRS  131 (325)
T ss_pred             HHHHhc
Confidence            544443

RecA couples ATP hydrolysis to DNA strand exchange.

>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=92.27  E-value=0.19  Score=45.50  Aligned_cols=26  Identities=42%  Similarity=0.457  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998765

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=92.27  E-value=0.11  Score=45.72  Aligned_cols=23  Identities=39%  Similarity=0.436  Sum_probs=20.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|+++|.+|+|||||++.+.+..
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998754

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=92.23  E-value=0.13  Score=45.16  Aligned_cols=25  Identities=36%  Similarity=0.476  Sum_probs=21.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++.|+|.+|+||||+.+.+-...
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5799999999999999998776544

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=92.19  E-value=0.19  Score=46.08  Aligned_cols=26  Identities=35%  Similarity=0.590  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+....
T Consensus        17 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        17 RGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

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.

>PLN02200 adenylate kinase family protein

Probab=92.19  E-value=0.15  Score=48.48  Aligned_cols=26  Identities=31%  Similarity=0.277  Sum_probs=23.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+.+|.|.|+.|+||||+|+.+....
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999998766

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=92.19  E-value=0.32  Score=44.15  Aligned_cols=44  Identities=23%  Similarity=0.160  Sum_probs=31.0

Q ss_pred             EEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHH
Q 009534          171 VGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      +-|.|.+|+|||++|..+.....   ..=..++|++...  +..++.+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~---~~g~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL---ARGEPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH---HCCCcEEEEECCC--CHHHHHHH
Confidence            56899999999999999877653   2225677887654  45555444

A related protein is found in archaea.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=92.17  E-value=0.52  Score=45.66  Aligned_cols=55  Identities=25%  Similarity=0.234  Sum_probs=34.3

Q ss_pred             HHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHH
Q 009534          155 TLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQ  217 (532)
Q Consensus       155 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~  217 (532)
                      -.+.+..++..+  .-+-++|..|+|||++|+.+....   ..   ....+......+..++.
T Consensus        10 l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l---g~---~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640        10 VTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR---DR---PVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh---CC---CEEEEeCCccCCHHHHh
Confidence            344455555443  344589999999999999998754   22   23455555555554444

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).

>PRK13976 thymidylate kinase; Provisional

Probab=92.17  E-value=0.32  Score=45.35  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=21.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|+|-|..|+||||+++.+++..
T Consensus         2 fIv~EGiDGsGKsTq~~~L~~~L   24 (209)
T PRK13976          2 FITFEGIDGSGKTTQSRLLAEYL   24 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999988

>PRK06620 hypothetical protein; Validated

Probab=92.17  E-value=0.12  Score=48.31  Aligned_cols=24  Identities=25%  Similarity=0.077  Sum_probs=21.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+-|+|+.|+|||+|++.+.+..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            568999999999999999987765

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=92.17  E-value=0.18  Score=47.09  Aligned_cols=35  Identities=26%  Similarity=0.203  Sum_probs=27.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||++.+..-.    ....+.+++
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~Gl~----~~~~G~i~~   61 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYGAL----TPSRGQVRI   61 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCceEEE
Confidence            34689999999999999999998765    234555554

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.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=92.13  E-value=0.47  Score=49.79  Aligned_cols=72  Identities=17%  Similarity=0.178  Sum_probs=43.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTM  247 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L  247 (532)
                      ..-+-|+|..|+|||+|++++.+.. .....-..++++      +..++...+...+...         ......+++.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l-~~~~~~~~v~yv------~~~~f~~~~~~~l~~~---------~~~~~~~~~~~  204 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYI-ESNFSDLKVSYM------SGDEFARKAVDILQKT---------HKEIEQFKNEI  204 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHH-HHhCCCCeEEEE------EHHHHHHHHHHHHHHh---------hhHHHHHHHHh
Confidence            3558899999999999999999966 211111234455      3345666666555421         01233455555


Q ss_pred             cCCcEEEe
Q 009534          248 RNTKFLIS  255 (532)
Q Consensus       248 ~~kr~LlV  255 (532)
                      +.-.+|++
T Consensus       205 ~~~dvLiI  212 (450)
T PRK14087        205 CQNDVLII  212 (450)
T ss_pred             ccCCEEEE
Confidence            66666666

>TIGR00602 rad24 checkpoint protein rad24

Probab=92.11  E-value=0.18  Score=54.78  Aligned_cols=46  Identities=20%  Similarity=0.330  Sum_probs=39.1

Q ss_pred             CcccccHHHHHHHHHHhccC-----CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEE-----PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~-----~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++++..++...     ..+++.++|+.|+||||+++.+....
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999998653     34679999999999999999998766

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=92.10  E-value=0.12  Score=45.59  Aligned_cols=25  Identities=32%  Similarity=0.604  Sum_probs=23.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|++|+|+-|+|||||...+....
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L   26 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKL   26 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHH
Confidence            4789999999999999999999888

>PRK14738 gmk guanylate kinase; Provisional

Probab=92.09  E-value=0.14  Score=47.56  Aligned_cols=25  Identities=28%  Similarity=0.446  Sum_probs=22.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      ..++|.|+|+.|+|||||++.+...
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            5788999999999999999999754

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=92.08  E-value=0.14  Score=45.74  Aligned_cols=23  Identities=30%  Similarity=0.496  Sum_probs=21.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+|.|+.|+||||+|+.+.+..
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            78999999999999999998765

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.

>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=92.07  E-value=0.2  Score=47.12  Aligned_cols=35  Identities=26%  Similarity=0.239  Sum_probs=27.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||.+.+....    ....+.+++
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~~----~~~~G~i~~   59 (220)
T cd03265          25 RGEIFGLLGPNGAGKTTTIKMLTTLL----KPTSGRATV   59 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            45789999999999999999998765    334555555

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=92.07  E-value=0.51  Score=49.66  Aligned_cols=25  Identities=40%  Similarity=0.519  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-+-|+|..|+|||+|++++.+..
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~  172 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYI  172 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3568899999999999999999988

>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=92.03  E-value=0.15  Score=41.74  Aligned_cols=22  Identities=32%  Similarity=0.297  Sum_probs=20.0

Q ss_pred             ceEEEEecCCCCcHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQIN  189 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~  189 (532)
                      -..++|.|..|.|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4689999999999999999975

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

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=92.03  E-value=0.14  Score=47.18  Aligned_cols=23  Identities=35%  Similarity=0.482  Sum_probs=20.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      ..+|+++|+.|+||||.|+.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            46899999999999999998866

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=92.03  E-value=0.13  Score=45.20  Aligned_cols=23  Identities=26%  Similarity=0.600  Sum_probs=20.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++.|+|..|+||||+|+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998876

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>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=92.02  E-value=0.27  Score=45.19  Aligned_cols=44  Identities=20%  Similarity=0.207  Sum_probs=32.8

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..+..+.-....  .+=+-++|..|+|||++|+.+-.-.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--GHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             hhhcCcHHHHHHHHHHHcC--CCCeEEECCCCCCHHHHHHHHHHhC
Confidence            4678988888777766654  3677899999999999999986543

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.

>COG4240 Predicted kinase [General function prediction only]

Probab=92.02  E-value=0.94  Score=41.97  Aligned_cols=84  Identities=14%  Similarity=0.012  Sum_probs=55.1

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhc----CCCCCCCCCCHHHHHH
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIG----LCNESWDSKSFDEKAQ  241 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~----~~~~~~~~~~~~~~~~  241 (532)
                      +++-+++|.|+-|.||||++-.++... ..+.. +.....++..-+-...-+-.++++..    ..+. ....++.-...
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L-~~kg~-ert~~lSLDDlYlthadrl~La~q~npllq~RGl-pGTHD~tlgln  124 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLL-AAKGL-ERTATLSLDDLYLTHADRLRLARQVNPLLQTRGL-PGTHDPTLGLN  124 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHH-HHhcc-cceEEeehhhhhcchHHHHHHHHhcCchhcccCC-CCCCchHHHHH
Confidence            468899999999999999999999988 33332 46666665554444444445555531    1111 15566666777


Q ss_pred             HHHHHhcCCcE
Q 009534          242 EIFKTMRNTKF  252 (532)
Q Consensus       242 ~l~~~L~~kr~  252 (532)
                      .+....+++.-
T Consensus       125 VLnai~~g~~~  135 (300)
T COG4240         125 VLNAIARGGPT  135 (300)
T ss_pred             HHHHHhcCCCC
Confidence            77777777654

>TIGR00959 ffh signal recognition particle protein

Probab=92.02  E-value=0.68  Score=47.99  Aligned_cols=86  Identities=15%  Similarity=0.160  Sum_probs=45.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCC--HHHHHHHHHHHhcCCCCCC-CCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQ--LGKIQESIAKKIGLCNESW-DSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~--~~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~l  243 (532)
                      .+.++.++|..|+||||.|..+.... ..+..+ .+.-|+.. .+.  ..+-+.......+.+.... ...++.+.....
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l-~~~~g~-kV~lV~~D-~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~a  174 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYL-KKKQGK-KVLLVACD-LYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRA  174 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH-HHhCCC-eEEEEecc-ccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHH
Confidence            46899999999999999998887765 111222 33444432 222  2222334445554432111 223444554444


Q ss_pred             HHHh--cCCcEEEe
Q 009534          244 FKTM--RNTKFLIS  255 (532)
Q Consensus       244 ~~~L--~~kr~LlV  255 (532)
                      .+..  .+..++||
T Consensus       175 l~~~~~~~~DvVII  188 (428)
T TIGR00959       175 LEYAKENGFDVVIV  188 (428)
T ss_pred             HHHHHhcCCCEEEE
Confidence            3333  33456777

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=92.00  E-value=0.21  Score=49.52  Aligned_cols=24  Identities=38%  Similarity=0.526  Sum_probs=20.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++-+.|-|||||||+|-+..-..
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~   25 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALAL   25 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHH
Confidence            678899999999999997765555

...

>PRK09354 recA recombinase A; Provisional

Probab=91.95  E-value=0.4  Score=48.09  Aligned_cols=75  Identities=20%  Similarity=0.132  Sum_probs=48.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCC---CCCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES---WDSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l  243 (532)
                      .-+++-|+|+.|+||||||.++.....   ..-..++||+....++..     .++.++...+.   ....+.++....+
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~~---~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEAQ---KAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            467888999999999999999876652   334678999887776653     34444432211   1233455555555


Q ss_pred             HHHhcC
Q 009534          244 FKTMRN  249 (532)
Q Consensus       244 ~~~L~~  249 (532)
                      ...++.
T Consensus       131 ~~li~s  136 (349)
T PRK09354        131 DTLVRS  136 (349)
T ss_pred             HHHhhc
Confidence            555543

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=91.93  E-value=0.55  Score=49.14  Aligned_cols=37  Identities=35%  Similarity=0.451  Sum_probs=27.7

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCC-eEEEEE
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFD-FVIWEV  206 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~-~~~wv~  206 (532)
                      ..-+-|+|..|+|||+|++++.+...  +.+.+ .+.|++
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~--~~~~~~~v~yi~  167 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVV--QNEPDLRVMYIT  167 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH--HhCCCCeEEEEE
Confidence            34689999999999999999999873  22222 456664

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

Probab=91.92  E-value=0.22  Score=45.81  Aligned_cols=36  Identities=28%  Similarity=0.155  Sum_probs=27.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      +-.|++|+|+.|.|||||.+.+..-.    ..=.+.+||.
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE----~~~~G~I~i~   62 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLE----EPDSGSITVD   62 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCc----CCCCceEEEC
Confidence            45789999999999999999996544    2224677774

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=91.89  E-value=0.14  Score=40.47  Aligned_cols=23  Identities=39%  Similarity=0.707  Sum_probs=20.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++.+.|.+|+||||++..+....
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l   23 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAAL   23 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999998887

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=91.89  E-value=0.14  Score=47.87  Aligned_cols=24  Identities=29%  Similarity=0.700  Sum_probs=21.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|+|.|-||+||||++..+....
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~l   24 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAAL   24 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHH
Confidence            578999999999999998887777

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.89  E-value=0.57  Score=51.10  Aligned_cols=46  Identities=22%  Similarity=0.279  Sum_probs=39.5

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+.+++..+++ +.+-++|+.|+||||+|+.+....
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l   63 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTI   63 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999988765 557899999999999999887765

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=91.88  E-value=0.2  Score=46.63  Aligned_cols=26  Identities=35%  Similarity=0.438  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998765

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.

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

Probab=91.87  E-value=0.35  Score=45.27  Aligned_cols=45  Identities=29%  Similarity=0.389  Sum_probs=36.0

Q ss_pred             cccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++-|.+-.++++.+...-             +.++=+-.+|++|.|||-||++|.+.-
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t  213 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHT  213 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhcc
Confidence            456788888888777632             356677889999999999999999876

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=91.87  E-value=0.15  Score=46.10  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=22.3

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.|+|..|.||||+++.+....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l   27 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALF   27 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            578999999999999999999877

>PRK13768 GTPase; Provisional

Probab=91.85  E-value=0.15  Score=49.02  Aligned_cols=24  Identities=38%  Similarity=0.477  Sum_probs=21.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.|.|.||+||||++..+....
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l   26 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWL   26 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHH
Confidence            578999999999999999887776

>PLN02165 adenylate isopentenyltransferase

Probab=91.83  E-value=0.16  Score=50.34  Aligned_cols=30  Identities=23%  Similarity=0.339  Sum_probs=25.7

Q ss_pred             hccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          163 LTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       163 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+..-.++.|+|+.|+||||||..+....
T Consensus        38 ~~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         38 EQNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             ccCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            345566799999999999999999998876

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=91.82  E-value=0.25  Score=49.11  Aligned_cols=26  Identities=27%  Similarity=0.410  Sum_probs=23.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....|.++|+.|+||||+++.+....
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~L  157 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARL  157 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            56789999999999999999998876

>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=91.82  E-value=0.17  Score=44.87  Aligned_cols=24  Identities=38%  Similarity=0.714  Sum_probs=22.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|+|..|+|||||+..+....
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l   25 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPAL   25 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999887

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.

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=91.80  E-value=0.14  Score=52.58  Aligned_cols=27  Identities=33%  Similarity=0.441  Sum_probs=24.5

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-++.|+|+|..|+|||||++.+....
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999998875

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=91.80  E-value=0.068  Score=55.63  Aligned_cols=103  Identities=17%  Similarity=0.192  Sum_probs=58.7

Q ss_pred             hcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeeccc
Q 009534          290 LLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYA  369 (532)
Q Consensus       290 l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~  369 (532)
                      +..+.+|..|++.-.   .++.+...   ..+|++|+.|++++ +.++.+..  +..++.|+.|++.+. .+..+..   
T Consensus        91 l~~~~~l~~l~l~~n---~i~~i~~~---l~~~~~L~~L~ls~-N~I~~i~~--l~~l~~L~~L~l~~N-~i~~~~~---  157 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDN---KIEKIENL---LSSLVNLQVLDLSF-NKITKLEG--LSTLTLLKELNLSGN-LISDISG---  157 (414)
T ss_pred             cccccceeeeecccc---chhhcccc---hhhhhcchheeccc-cccccccc--hhhccchhhheeccC-cchhccC---
Confidence            455566666664322   22222221   23456677777777 34665543  455666777777764 3333322   


Q ss_pred             CCccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeecc
Q 009534          370 GGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYD  414 (532)
Q Consensus       370 ~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~  414 (532)
                               ...+++|+.+++.+|.++.+..  +..+++|+.+.+.+
T Consensus       158 ---------~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~  195 (414)
T KOG0531|consen  158 ---------LESLKSLKLLDLSYNRIVDIENDELSELISLEELDLGG  195 (414)
T ss_pred             ---------CccchhhhcccCCcchhhhhhhhhhhhccchHHHhccC
Confidence                     1136777777777776666655  46777777777754

>PHA02244 ATPase-like protein

Probab=91.79  E-value=0.37  Score=48.44  Aligned_cols=37  Identities=22%  Similarity=0.223  Sum_probs=26.9

Q ss_pred             HHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          154 STLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       154 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .....+.+++..+  .-|-++|+.|+|||++|+++....
T Consensus       107 ~~~~ri~r~l~~~--~PVLL~GppGtGKTtLA~aLA~~l  143 (383)
T PHA02244        107 YETADIAKIVNAN--IPVFLKGGAGSGKNHIAEQIAEAL  143 (383)
T ss_pred             HHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHh
Confidence            3344555555443  235679999999999999999876

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

Probab=91.75  E-value=0.35  Score=48.36  Aligned_cols=46  Identities=22%  Similarity=0.292  Sum_probs=34.9

Q ss_pred             CcccccHHHHHH---HHHHhccCC--ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDR---VWRCLTEEP--VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~---l~~~L~~~~--~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+||..+..+.   +++++..++  -+.|-+.|++|.|||+||..+....
T Consensus        24 ~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eL   74 (398)
T PF06068_consen   24 DGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKEL   74 (398)
T ss_dssp             TTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHC
T ss_pred             ccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHh
Confidence            578998765544   677777764  6788899999999999999999998

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

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=91.72  E-value=0.2  Score=46.72  Aligned_cols=32  Identities=31%  Similarity=0.334  Sum_probs=25.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      +++|+|..|.|||||++.+..-.    ....+.+++
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   58 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT----PPSSGTIRI   58 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC----CCCccEEEE
Confidence            89999999999999999998765    233455555

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.

>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=91.72  E-value=0.24  Score=44.85  Aligned_cols=26  Identities=27%  Similarity=0.511  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45699999999999999999998765

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.

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

Probab=91.72  E-value=0.15  Score=52.60  Aligned_cols=46  Identities=20%  Similarity=0.205  Sum_probs=35.4

Q ss_pred             CcccccHHHHHHHHHHhcc-------C---------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------E---------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.+..++.+...+.+       .         .-.-+-++|+.|+|||++|+.+....
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            4579999988887665521       0         12457899999999999999998765

>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=91.71  E-value=0.23  Score=46.42  Aligned_cols=26  Identities=35%  Similarity=0.609  Sum_probs=23.4

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .. .+++|+|..|.|||||++.+..-.
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCCC
Confidence            36 899999999999999999998765

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.

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=91.71  E-value=0.15  Score=49.48  Aligned_cols=35  Identities=20%  Similarity=0.222  Sum_probs=27.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEe
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVV  207 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v  207 (532)
                      ++|+|+|..|+|||||+..+.... ..++   .++-|..
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L-~~~G---~V~~IKh   36 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRL-SGRG---RVGTVKH   36 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH-HhCC---CEEEEEE
Confidence            589999999999999999999988 3332   3555543

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=91.70  E-value=1.5  Score=42.55  Aligned_cols=53  Identities=17%  Similarity=0.099  Sum_probs=37.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKI  224 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l  224 (532)
                      -.++.|.|..|+||||++..+.....  ..+=..++|+++..  ...++...+...+
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~--~~~g~~vl~iS~E~--~~~~~~~r~~~~~   82 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLI--TQHGVRVGTISLEE--PVVRTARRLLGQY   82 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH--HhcCceEEEEEccc--CHHHHHHHHHHHH
Confidence            45788999999999999999877652  22235688887655  4455666655543

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>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=91.70  E-value=0.23  Score=46.68  Aligned_cols=26  Identities=38%  Similarity=0.414  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          29 EGEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

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.

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

Probab=91.70  E-value=0.13  Score=49.40  Aligned_cols=23  Identities=30%  Similarity=0.612  Sum_probs=20.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|.++|++|+||||+|+.+....
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            37789999999999999998876

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.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=91.70  E-value=0.16  Score=45.61  Aligned_cols=24  Identities=29%  Similarity=0.350  Sum_probs=21.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.|.|+|+.|+||||+|+.+.+..
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~l   26 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQAL   26 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            357889999999999999999876

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=91.69  E-value=0.54  Score=48.05  Aligned_cols=26  Identities=35%  Similarity=0.574  Sum_probs=23.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+-+|+|.|..|.|||||++.+..-.
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~lL  236 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDYLF  236 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999997655

>TIGR00101 ureG urease accessory protein UreG

Probab=91.68  E-value=0.3  Score=45.11  Aligned_cols=24  Identities=29%  Similarity=0.492  Sum_probs=21.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.|+.|.||||+.+.+.+..
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~l   25 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRAL   25 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhh
Confidence            368999999999999999999876

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.67  E-value=0.24  Score=53.93  Aligned_cols=46  Identities=20%  Similarity=0.247  Sum_probs=39.7

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++-++.+.+++..++. +-+-++|..|+||||+|+.+....
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L   62 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSL   62 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            3579999999999999987653 567789999999999999998887

>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=91.67  E-value=0.15  Score=42.47  Aligned_cols=21  Identities=33%  Similarity=0.601  Sum_probs=19.7

Q ss_pred             EEEecCCCCcHHHHHHHHHHh
Q 009534          171 VGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~  191 (532)
                      |+|+|+.|+|||||.+.+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999985

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 ....

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=91.67  E-value=0.71  Score=46.11  Aligned_cols=57  Identities=21%  Similarity=0.347  Sum_probs=41.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCC----CCeEEEEEeCCCCCHHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNN----FDFVIWEVVSRDLQLGKIQESIAKKIG  225 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~----F~~~~wv~v~~~~~~~~l~~~i~~~l~  225 (532)
                      .-.++-|+|..|+|||+++..+.-.. .....    =..++||+....++...+.+. ++.++
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~-~~~~~~gg~~~~~~yi~te~~f~~~rl~~~-~~~~g  161 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNV-QLPEEKGGLEGKAVYIDTEGTFRPERIEQM-AEALG  161 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHh-ccccccCCCCceEEEEeCCCCcCHHHHHHH-HHHcC
Confidence            46788899999999999999987654 21111    147899999888888776544 34443

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=91.66  E-value=0.15  Score=45.11  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=19.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|.+|+|||||++++.+..
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~   24 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGH   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999987654

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>PLN02348 phosphoribulokinase

Probab=91.65  E-value=0.18  Score=51.00  Aligned_cols=27  Identities=26%  Similarity=0.581  Sum_probs=24.9

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++..+|+|.|..|.||||+|+.+.+..
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999999887

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=91.64  E-value=0.27  Score=50.01  Aligned_cols=47  Identities=17%  Similarity=0.188  Sum_probs=40.5

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhcc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSFL  193 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~~  193 (532)
                      .+++|.++.++.+.+.+..++ .+.+-++|+.|+||+|+|..+.....
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Ll   66 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLL   66 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence            468999999999999998876 45688999999999999999877764

>cd01862 Rab7 Rab7 subfamily

Probab=91.64  E-value=0.14  Score=45.68  Aligned_cols=23  Identities=43%  Similarity=0.509  Sum_probs=20.2

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|.+|+|||||++.+.+..
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~~   24 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNKK   24 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999987764

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

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

Probab=91.64  E-value=0.34  Score=45.62  Aligned_cols=53  Identities=26%  Similarity=0.404  Sum_probs=40.8

Q ss_pred             CCCCCCC--CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          140 VDERPLP--PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       140 ~~~~~~~--~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|++  +++-|.+..++++++.+.-             ..++=+-.+|++|.|||-+|++...+-
T Consensus       162 vDekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT  229 (424)
T KOG0652|consen  162 VDEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT  229 (424)
T ss_pred             eccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc
Confidence            4445543  5678899999999998742             135567789999999999999987765

>PLN02796 D-glycerate 3-kinase

Probab=91.61  E-value=0.18  Score=50.26  Aligned_cols=26  Identities=35%  Similarity=0.528  Sum_probs=23.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+-+|+|.|..|.|||||++.+....
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL  124 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLF  124 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHh
Confidence            46789999999999999999999877

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=91.61  E-value=0.67  Score=47.32  Aligned_cols=68  Identities=16%  Similarity=0.245  Sum_probs=51.7

Q ss_pred             cHHHHHHHHHHhccCCceEEEEecCCCCcHHHHH-HHHHHhccCCCCCCCeEEEEEeCC---CCCHHHHHHHHHHHhcC
Q 009534          152 LQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLL-TQINNSFLHTPNNFDFVIWEVVSR---DLQLGKIQESIAKKIGL  226 (532)
Q Consensus       152 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa-~~v~~~~~~~~~~F~~~~wv~v~~---~~~~~~l~~~i~~~l~~  226 (532)
                      |.+.++.+-.||.+..-..|.|.|+-|.||+.|+ .++..+.       +.+..+++.+   ..+-..+.+.++.++|=
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r-------~~vL~IDC~~i~~ar~D~~~I~~lA~qvGY   72 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDR-------KNVLVIDCDQIVKARGDAAFIKNLASQVGY   72 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCC-------CCEEEEEChHhhhccChHHHHHHHHHhcCC
Confidence            5677899999999988889999999999999999 7776655       1267776443   23456677777777753

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=91.61  E-value=0.44  Score=47.59  Aligned_cols=36  Identities=22%  Similarity=0.419  Sum_probs=28.8

Q ss_pred             HHHHHHhc--cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          157 DRVWRCLT--EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       157 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+++.+.  .++..+|+|.|..|+||||++..+....
T Consensus        43 ~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l   80 (332)
T PRK09435         43 QELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHL   80 (332)
T ss_pred             HHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34555553  3578899999999999999999987776

>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=91.60  E-value=0.25  Score=43.05  Aligned_cols=26  Identities=42%  Similarity=0.682  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45789999999999999999997765

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=91.59  E-value=0.23  Score=46.64  Aligned_cols=26  Identities=38%  Similarity=0.576  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998865

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=91.59  E-value=0.2  Score=56.10  Aligned_cols=46  Identities=30%  Similarity=0.417  Sum_probs=37.1

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|.++.++.+.+++..             ...+-+-++|+.|+|||++|+.+.+..
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~  236 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA  236 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            3578999999888887632             134567899999999999999999876

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

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=91.59  E-value=0.23  Score=46.64  Aligned_cols=35  Identities=29%  Similarity=0.246  Sum_probs=27.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||.+.+....    ....+.+++
T Consensus        30 ~G~~~~i~G~nGsGKSTLl~~i~G~~----~~~~G~i~~   64 (221)
T TIGR02211        30 KGEIVAIVGSSGSGKSTLLHLLGGLD----NPTSGEVLF   64 (221)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEE
Confidence            45689999999999999999998765    233455554

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.

>cd04155 Arl3 Arl3 subfamily

Probab=91.58  E-value=0.24  Score=44.31  Aligned_cols=25  Identities=28%  Similarity=0.442  Sum_probs=22.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      +...++|+|..|+|||||.+.+...
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcC
Confidence            4566999999999999999999876

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.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=91.58  E-value=0.24  Score=47.12  Aligned_cols=26  Identities=35%  Similarity=0.641  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        26 PGEFVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45789999999999999999998765

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.

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=91.57  E-value=0.15  Score=46.85  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=20.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~~   23 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEHL   23 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998764

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=91.57  E-value=0.15  Score=45.07  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=19.8

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|.+|+|||||+.++.+..
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999988764

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=91.57  E-value=0.3  Score=51.94  Aligned_cols=54  Identities=26%  Similarity=0.394  Sum_probs=42.2

Q ss_pred             cccccHHHHHHHHHHhccC-----CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          148 TVVGLQSTLDRVWRCLTEE-----PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~~~-----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      +++--..-++++.+||...     ..+++-+.|+.|+||||.++.+.+..     .|+.+-|..
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~n   78 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWIN   78 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEecC
Confidence            3444556778888888642     36799999999999999999999876     477788874

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

Probab=91.56  E-value=1.7  Score=44.13  Aligned_cols=98  Identities=21%  Similarity=0.227  Sum_probs=54.8

Q ss_pred             HHHHHHHHHhccC----CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC-CHHHHHHHHHHHhcCCC
Q 009534          154 STLDRVWRCLTEE----PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL-QLGKIQESIAKKIGLCN  228 (532)
Q Consensus       154 ~~~~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~-~~~~l~~~i~~~l~~~~  228 (532)
                      +....+..++.++    +-++|.++|+-||||||-.-.+..+. .....=..+..|+..... +..+=++.-++-++.+-
T Consensus       185 ~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~-~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~  263 (407)
T COG1419         185 EKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARY-VMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPL  263 (407)
T ss_pred             HHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHH-HhhccCcceEEEEeccchhhHHHHHHHHHHHhCCce
Confidence            3344445554443    48999999999999987555554444 211223456667654432 22222333344444433


Q ss_pred             CCCCCCCHHHHHHHHHHHhcCCcEEEe
Q 009534          229 ESWDSKSFDEKAQEIFKTMRNTKFLIS  255 (532)
Q Consensus       229 ~~~~~~~~~~~~~~l~~~L~~kr~LlV  255 (532)
                      .  -..+..++...+ ..+++.++.+|
T Consensus       264 ~--vv~~~~el~~ai-~~l~~~d~ILV  287 (407)
T COG1419         264 E--VVYSPKELAEAI-EALRDCDVILV  287 (407)
T ss_pred             E--EecCHHHHHHHH-HHhhcCCEEEE
Confidence            1  344555555444 45678899999

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=91.56  E-value=0.24  Score=45.94  Aligned_cols=26  Identities=35%  Similarity=0.460  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            35689999999999999999998865

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.

>PRK13973 thymidylate kinase; Provisional

Probab=91.49  E-value=0.49  Score=44.24  Aligned_cols=24  Identities=21%  Similarity=0.400  Sum_probs=22.7

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..|+|-|+.|+||||+++.++...
T Consensus         4 ~~IviEG~dGsGKtTq~~~l~~~l   27 (213)
T PRK13973          4 RFITFEGGEGAGKSTQIRLLAERL   27 (213)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999998

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

Probab=91.47  E-value=0.26  Score=51.13  Aligned_cols=46  Identities=26%  Similarity=0.304  Sum_probs=35.5

Q ss_pred             CcccccHH---HHHHHHHHhccC--------C-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQS---TLDRVWRCLTEE--------P-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~---~~~~l~~~L~~~--------~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++-|.|+   ++++|++.|.++        + ++=|-.+|++|.|||-||++|....
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            45678774   566677788763        2 4557789999999999999998876

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

Probab=91.47  E-value=0.19  Score=50.26  Aligned_cols=26  Identities=23%  Similarity=0.325  Sum_probs=24.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -++.++|||+.|+|||.+|++++++.
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            57899999999999999999999988

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=91.47  E-value=0.15  Score=46.22  Aligned_cols=21  Identities=38%  Similarity=0.594  Sum_probs=19.4

Q ss_pred             EEEEecCCCCcHHHHHHHHHH
Q 009534          170 IVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      +|+|.|+.|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999876

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>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=91.44  E-value=0.17  Score=48.19  Aligned_cols=20  Identities=30%  Similarity=0.486  Sum_probs=18.2

Q ss_pred             EecCCCCcHHHHHHHHHHhc
Q 009534          173 LYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       173 I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |+|++|+||||+++.+.+..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~   20 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL   20 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHH
Confidence            68999999999999999988

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

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=91.43  E-value=0.25  Score=45.53  Aligned_cols=35  Identities=23%  Similarity=0.187  Sum_probs=27.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||.+.+....    ....+.+++
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   59 (198)
T TIGR01189        25 AGEALQVTGPNGIGKTTLLRILAGLL----RPDSGEVRW   59 (198)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCccEEEE
Confidence            45789999999999999999998865    233455554

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.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.42  E-value=0.26  Score=45.51  Aligned_cols=36  Identities=36%  Similarity=0.337  Sum_probs=28.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      +-.+++|+|..|.|||||.+.+....    ....+.+++.
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~~   61 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGLL----NPEKGEILFE   61 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCeeEEEC
Confidence            45789999999999999999998765    3345566653

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.41  E-value=0.31  Score=51.50  Aligned_cols=46  Identities=17%  Similarity=0.206  Sum_probs=39.0

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+.-++.+.+++..++ .+..-++|+.|+||||+|+.+....
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L   62 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVL   62 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357999999999999998765 4456789999999999999988765

>PRK08939 primosomal protein DnaI; Reviewed

Probab=91.39  E-value=0.85  Score=45.19  Aligned_cols=85  Identities=22%  Similarity=0.214  Sum_probs=51.4

Q ss_pred             ccHHHHHHHHHHhcc----CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcC
Q 009534          151 GLQSTLDRVWRCLTE----EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGL  226 (532)
Q Consensus       151 Gr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~  226 (532)
                      ++....+...+++..    ...+-+-++|..|+|||.||.++.+...  +.. ..+.+++++      .+...+......
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~--~~g-~~v~~~~~~------~l~~~lk~~~~~  205 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA--KKG-VSSTLLHFP------EFIRELKNSISD  205 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--HcC-CCEEEEEHH------HHHHHHHHHHhc
Confidence            444445555555542    1345688999999999999999999983  223 345566543      455555544421


Q ss_pred             CCCCCCCCCHHHHHHHHHHHhcCCcEEEe
Q 009534          227 CNESWDSKSFDEKAQEIFKTMRNTKFLIS  255 (532)
Q Consensus       227 ~~~~~~~~~~~~~~~~l~~~L~~kr~LlV  255 (532)
                             .+.    ....+.++.-.+|++
T Consensus       206 -------~~~----~~~l~~l~~~dlLiI  223 (306)
T PRK08939        206 -------GSV----KEKIDAVKEAPVLML  223 (306)
T ss_pred             -------CcH----HHHHHHhcCCCEEEE
Confidence                   111    223345667777777

>PRK10867 signal recognition particle protein; Provisional

Probab=91.39  E-value=0.85  Score=47.34  Aligned_cols=86  Identities=15%  Similarity=0.190  Sum_probs=46.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCH--HHHHHHHHHHhcCCCCCC-CCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQL--GKIQESIAKKIGLCNESW-DSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~--~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~l  243 (532)
                      ...+|.++|..|+||||.+..+.... ..+. -..+..|+.. .+..  .+-++...+..+.+.... ...++.......
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l-~~~~-G~kV~lV~~D-~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a  175 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYL-KKKK-KKKVLLVAAD-VYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAA  175 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH-HHhc-CCcEEEEEcc-ccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHH
Confidence            47899999999999999888887766 2111 1234444432 2322  222334455555432111 223455555444


Q ss_pred             HHHh--cCCcEEEe
Q 009534          244 FKTM--RNTKFLIS  255 (532)
Q Consensus       244 ~~~L--~~kr~LlV  255 (532)
                      .+..  .+..++||
T Consensus       176 ~~~a~~~~~DvVII  189 (433)
T PRK10867        176 LEEAKENGYDVVIV  189 (433)
T ss_pred             HHHHHhcCCCEEEE
Confidence            4433  34457777

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=91.38  E-value=0.26  Score=46.58  Aligned_cols=26  Identities=31%  Similarity=0.369  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45799999999999999999998765

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=91.38  E-value=0.26  Score=45.99  Aligned_cols=26  Identities=38%  Similarity=0.333  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|.|..|.|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          25 DGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

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.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=91.37  E-value=0.27  Score=45.64  Aligned_cols=25  Identities=32%  Similarity=0.348  Sum_probs=22.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.+++|+|..|.|||||.+.+....
T Consensus        24 Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        24 GKMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999998765

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.

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=91.33  E-value=0.17  Score=49.37  Aligned_cols=25  Identities=28%  Similarity=0.650  Sum_probs=21.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhcc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFL  193 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~  193 (532)
                      ++|+|.|-|||||||+|..+.....
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~La   26 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAALS   26 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5788889999999999999888773

>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=91.32  E-value=0.17  Score=46.29  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=20.2

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|.|+.|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999998875

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>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=91.30  E-value=0.26  Score=46.85  Aligned_cols=26  Identities=35%  Similarity=0.459  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

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.

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=91.30  E-value=0.17  Score=49.48  Aligned_cols=25  Identities=32%  Similarity=0.615  Sum_probs=22.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhcc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFL  193 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~  193 (532)
                      ++|+|+|-|||||||+|..+.....
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~La   26 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAALA   26 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5789999999999999999888773

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=91.30  E-value=0.21  Score=43.09  Aligned_cols=43  Identities=26%  Similarity=0.335  Sum_probs=30.8

Q ss_pred             cccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          150 VGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       150 vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ||.-..++++.+.+..  ....-|-|+|..|+||+++|+.++...
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            4555566666666543  345567899999999999999999876

>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=91.28  E-value=0.28  Score=44.15  Aligned_cols=26  Identities=42%  Similarity=0.529  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+....
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            35689999999999999999998765

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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=91.28  E-value=0.25  Score=47.15  Aligned_cols=26  Identities=42%  Similarity=0.604  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        27 PGEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998765

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.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=91.26  E-value=0.21  Score=44.47  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=21.1

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|..+||.|+||||+.+.+....
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk~L   26 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAKAL   26 (172)
T ss_pred             cEEEEcCCCCCHhHHHHHHHHHc
Confidence            47789999999999999999887

>PRK13236 nitrogenase reductase; Reviewed

Probab=91.24  E-value=0.2  Score=49.51  Aligned_cols=28  Identities=29%  Similarity=0.601  Sum_probs=24.7

Q ss_pred             cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          165 EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       165 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.+++++.|-|||||||.|..+..-.
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~L   30 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAM   30 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHH
Confidence            4568999999999999999998887777

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=91.23  E-value=0.27  Score=55.23  Aligned_cols=46  Identities=20%  Similarity=0.260  Sum_probs=40.0

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++||.+..++.|.+++..+++ +.+-++|..|+||||+|+.+....
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L   61 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSL   61 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999988765 467899999999999999998777

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

Probab=91.23  E-value=0.75  Score=49.06  Aligned_cols=51  Identities=29%  Similarity=0.316  Sum_probs=36.2

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCC
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFD  200 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~  200 (532)
                      +++-|.++-+.++-+.+.-             ...+=|-.+|++|.|||++|+++.+..   +.+|=
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~---~~nFl  497 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA---GMNFL  497 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh---cCCee
Confidence            4445566655555544432             256778889999999999999999987   45663

>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=91.20  E-value=0.26  Score=46.17  Aligned_cols=35  Identities=29%  Similarity=0.301  Sum_probs=27.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||.+.+..-.    ....+.+++
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~~~~G~i~~   64 (218)
T cd03266          30 PGEVTGLLGPNGAGKTTTLRMLAGLL----EPDAGFATV   64 (218)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc----CCCCceEEE
Confidence            34689999999999999999998765    234555555

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=91.20  E-value=0.18  Score=48.17  Aligned_cols=26  Identities=35%  Similarity=0.529  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g~l   52 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAGLL   52 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45789999999999999999998865

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=91.19  E-value=0.31  Score=53.44  Aligned_cols=46  Identities=17%  Similarity=0.260  Sum_probs=39.3

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+..++.+.+++..++ .+.+-++|+.|+||||+|+.+....
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~L   64 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANAL   64 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            357999999999999998765 4566789999999999999997765

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=91.17  E-value=0.28  Score=45.79  Aligned_cols=26  Identities=42%  Similarity=0.528  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          25 PGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998754

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=91.16  E-value=0.33  Score=48.04  Aligned_cols=27  Identities=33%  Similarity=0.511  Sum_probs=24.3

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +...+|+|.|.+|+||||++..+....
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~~~   58 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGMEL   58 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            468899999999999999999988876

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.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=91.16  E-value=0.28  Score=46.53  Aligned_cols=26  Identities=27%  Similarity=0.383  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        34 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         34 EGEMMAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998865

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

Probab=91.16  E-value=0.48  Score=53.11  Aligned_cols=46  Identities=28%  Similarity=0.497  Sum_probs=37.2

Q ss_pred             CcccccHHHHHHHHHHhcc-------C--CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------E--PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+.+.+..       .  ...++-++|+.|+|||++|+.+....
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            4578988888888888753       1  23467899999999999999998876

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=91.14  E-value=0.32  Score=52.75  Aligned_cols=46  Identities=17%  Similarity=0.252  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+.-++.+.+++..+++ +.+-++|..|+||||+|+.+....
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l   62 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKAL   62 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999987765 567899999999999999988776

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=91.14  E-value=0.27  Score=46.82  Aligned_cols=26  Identities=42%  Similarity=0.466  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          27 SGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998765

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=91.14  E-value=0.19  Score=43.44  Aligned_cols=24  Identities=38%  Similarity=0.422  Sum_probs=21.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.|-++|..|+|||||++++....
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            457899999999999999998766

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

>cd03114 ArgK-like The function of this protein family is unkown

Probab=91.13  E-value=0.18  Score=44.17  Aligned_cols=23  Identities=30%  Similarity=0.739  Sum_probs=20.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++.|.+|+||||++..+....
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~   23 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITAL   23 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999999999998776

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.

>COG3903 Predicted ATPase [General function prediction only]

Probab=91.13  E-value=0.24  Score=49.86  Aligned_cols=80  Identities=24%  Similarity=0.343  Sum_probs=57.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCC-CeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF-DFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      ..+.++++|.|||||||++-.+.+ .   ...| +.++++......+...+.-.....++....     +-+.....+..
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~---~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~-----~g~~~~~~~~~   83 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-A---ASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQ-----PGDSAVDTLVR   83 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-H---hhhcccceeeeeccccCchhHhHHHHHhhcccccc-----cchHHHHHHHH
Confidence            468899999999999999999988 4   3567 567777777776777776666666766431     11223445566


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      +..++|.++|
T Consensus        84 ~~~~rr~llv   93 (414)
T COG3903          84 RIGDRRALLV   93 (414)
T ss_pred             HHhhhhHHHH
Confidence            7778888877

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=91.12  E-value=0.18  Score=49.04  Aligned_cols=42  Identities=19%  Similarity=0.304  Sum_probs=29.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCH
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQL  213 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~  213 (532)
                      ++|+|.|-||+||||++..+..... . ..+ .++-|+.....+.
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La-~-~G~-kVlliD~Dpq~n~   43 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALA-E-MGK-KVMIVGCDPKADS   43 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHH-h-CCC-eEEEEEcCCCCCc
Confidence            5788889999999999999888773 1 222 4555665544333

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>TIGR00017 cmk cytidylate kinase

Probab=91.11  E-value=0.2  Score=46.93  Aligned_cols=24  Identities=25%  Similarity=0.494  Sum_probs=22.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+|.|+.|.||||+|+.+..+.
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~   26 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKL   26 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998876

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=91.11  E-value=0.25  Score=46.17  Aligned_cols=26  Identities=35%  Similarity=0.549  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          24 PGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45689999999999999999998765

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.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.11  E-value=0.28  Score=45.52  Aligned_cols=26  Identities=31%  Similarity=0.399  Sum_probs=23.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+....
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         26 AGELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998865

>PRK01184 hypothetical protein; Provisional

Probab=91.09  E-value=0.2  Score=45.62  Aligned_cols=23  Identities=35%  Similarity=0.618  Sum_probs=18.7

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+++|+.|+||||+|+ +..+.
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~~~   24 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IAREM   24 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHHHc
Confidence            479999999999999987 44433

>PRK14532 adenylate kinase; Provisional

Probab=91.08  E-value=0.19  Score=45.89  Aligned_cols=22  Identities=23%  Similarity=0.276  Sum_probs=20.0

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.+.|++|+||||+|+.+....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999998766

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=91.07  E-value=0.27  Score=46.87  Aligned_cols=26  Identities=42%  Similarity=0.606  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          26 PGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998765

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.

>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=91.06  E-value=0.26  Score=46.27  Aligned_cols=26  Identities=46%  Similarity=0.569  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          25 EGEIVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            45799999999999999999997765

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.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=91.01  E-value=0.29  Score=46.62  Aligned_cols=26  Identities=38%  Similarity=0.534  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        46 ~Ge~~~i~G~NGsGKSTLl~~i~Gl~   71 (236)
T cd03267          46 KGEIVGFIGPNGAGKTTTLKILSGLL   71 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45789999999999999999998765

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=91.00  E-value=0.31  Score=44.97  Aligned_cols=24  Identities=33%  Similarity=0.486  Sum_probs=21.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.|.|+.|.||||++..+....
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999987766

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.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=91.00  E-value=0.29  Score=46.71  Aligned_cols=35  Identities=23%  Similarity=0.108  Sum_probs=27.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|.|..|.|||||++.+....    ....+.+++
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   61 (242)
T PRK11124         27 QGETLVLLGPSGAGKSSLLRVLNLLE----MPRSGTLNI   61 (242)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            45689999999999999999998765    233455554

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=90.99  E-value=0.29  Score=46.18  Aligned_cols=26  Identities=27%  Similarity=0.332  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         32 AGEFKLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45689999999999999999998754

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=90.99  E-value=0.3  Score=52.54  Aligned_cols=46  Identities=15%  Similarity=0.246  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhccCCc-eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPV-GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|-+..++.+..++..++. +.+-++|+.|+||||+|+.+....
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L   62 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCL   62 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999987654 467899999999999999998876

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=90.98  E-value=0.29  Score=45.70  Aligned_cols=26  Identities=38%  Similarity=0.514  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|.|..|.|||||++.++...
T Consensus        23 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (213)
T TIGR01277        23 DGEIVAIMGPSGAGKSTLLNLIAGFI   48 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45789999999999999999998865

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=90.98  E-value=0.48  Score=51.05  Aligned_cols=53  Identities=28%  Similarity=0.328  Sum_probs=41.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIG  225 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~  225 (532)
                      .-+|.-.+|++|+||||||..|..+.     .| .++-|..|.......+-..|...+.
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqa-----GY-sVvEINASDeRt~~~v~~kI~~avq  377 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQA-----GY-SVVEINASDERTAPMVKEKIENAVQ  377 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhc-----Cc-eEEEecccccccHHHHHHHHHHHHh
Confidence            45788999999999999999998876     23 3566777887777777777777654

>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=90.97  E-value=0.28  Score=46.45  Aligned_cols=26  Identities=42%  Similarity=0.485  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          25 QGEIVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=90.97  E-value=0.29  Score=44.00  Aligned_cols=35  Identities=26%  Similarity=0.284  Sum_probs=25.6

Q ss_pred             HHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          158 RVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       158 ~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+.++........|.++|.+|+|||||...+....
T Consensus         5 ~~~~~~~~~~~~kv~~~G~~~~GKTsl~~~l~~~~   39 (174)
T cd04153           5 SLWSLFFPRKEYKVIIVGLDNAGKTTILYQFLLGE   39 (174)
T ss_pred             HHHHHhcCCCccEEEEECCCCCCHHHHHHHHccCC
Confidence            34455443345668899999999999999986543

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>smart00072 GuKc Guanylate kinase homologues

Probab=90.97  E-value=0.27  Score=44.80  Aligned_cols=25  Identities=36%  Similarity=0.458  Sum_probs=22.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++.++|+.|+||+|+++.+....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            4689999999999999999998875

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.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=90.97  E-value=0.38  Score=51.92  Aligned_cols=47  Identities=17%  Similarity=0.237  Sum_probs=35.5

Q ss_pred             CCcccccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          146 PPTVVGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       146 ~~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++..+.|.+-.+.+.++...  .+..+|.|+|+.|+||||+|+.+....
T Consensus       368 pP~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L  416 (568)
T PRK05537        368 IPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKL  416 (568)
T ss_pred             CChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHh
Confidence            34556777666655555533  255689999999999999999999887

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=90.95  E-value=1.1  Score=44.55  Aligned_cols=57  Identities=19%  Similarity=0.262  Sum_probs=40.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCC----CCCeEEEEEeCCCCCHHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPN----NFDFVIWEVVSRDLQLGKIQESIAKKIG  225 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~v~~~~~~~~l~~~i~~~l~  225 (532)
                      .-.++-|+|..|+|||+++..+.... ....    .=..++||+....++...+.+. ++.++
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~-~~~~~~g~~~~~~~yi~te~~f~~~rl~~~-~~~~g  154 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNV-QLPEEKGGLGGKAVYIDTENTFRPERIMQM-AEARG  154 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh-cCCcccCCCcceEEEEECCCCCCHHHHHHH-HHHcC
Confidence            46788899999999999999987664 2110    1137899999888888776543 44443

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>PTZ00088 adenylate kinase 1; Provisional

Probab=90.93  E-value=0.2  Score=47.38  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=21.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|++|+||||+|+.+....
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999998876

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=90.91  E-value=0.29  Score=47.22  Aligned_cols=26  Identities=35%  Similarity=0.433  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         26 SGELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=90.90  E-value=0.23  Score=49.46  Aligned_cols=26  Identities=27%  Similarity=0.502  Sum_probs=24.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+++++|+.|+||||++..+....
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999998877

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=90.90  E-value=0.3  Score=46.50  Aligned_cols=25  Identities=40%  Similarity=0.507  Sum_probs=22.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.+++|+|+.|.|||||.+.+..-.
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLGll   54 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILGLL   54 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4789999999999999999998844

>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=90.89  E-value=0.32  Score=45.44  Aligned_cols=26  Identities=38%  Similarity=0.381  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        26 ~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          26 AGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998765

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>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=90.84  E-value=0.3  Score=46.66  Aligned_cols=26  Identities=35%  Similarity=0.395  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (242)
T cd03295          26 KGEFLVLIGPSGSGKTTTMKMINRLI   51 (242)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998765

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=90.84  E-value=0.3  Score=46.65  Aligned_cols=26  Identities=35%  Similarity=0.469  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         28 GGAIYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=90.82  E-value=0.3  Score=46.28  Aligned_cols=25  Identities=36%  Similarity=0.502  Sum_probs=22.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.+++|+|..|.|||||++.+..-.
T Consensus        11 Ge~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184        11 GEFISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999998765

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.

>PRK07933 thymidylate kinase; Validated

Probab=90.81  E-value=0.21  Score=46.71  Aligned_cols=23  Identities=26%  Similarity=0.608  Sum_probs=21.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|+|.|+.|+||||+++.+.+..
T Consensus         2 ~IviEG~dGsGKST~~~~L~~~L   24 (213)
T PRK07933          2 LIAIEGVDGAGKRTLTEALRAAL   24 (213)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999988

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=90.80  E-value=0.27  Score=47.93  Aligned_cols=25  Identities=32%  Similarity=0.573  Sum_probs=21.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhcc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFL  193 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~  193 (532)
                      ++|+|.|-|||||||++..+.....
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~La   26 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAGLA   26 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHHHH
Confidence            5789999999999999999887773

>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=90.80  E-value=0.35  Score=43.51  Aligned_cols=26  Identities=31%  Similarity=0.416  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+....
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            34689999999999999999998765

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

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=90.80  E-value=1.1  Score=44.81  Aligned_cols=73  Identities=15%  Similarity=0.222  Sum_probs=47.5

Q ss_pred             HHHHHHHHHhcc---CCceEEEEecCCCCcHHHHHHHHHHhccCCC-CCCCeEEEEEeCC----CCCHHHHHHHHHHHhc
Q 009534          154 STLDRVWRCLTE---EPVGIVGLYGMGGVGKTTLLTQINNSFLHTP-NNFDFVIWEVVSR----DLQLGKIQESIAKKIG  225 (532)
Q Consensus       154 ~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~-~~F~~~~wv~v~~----~~~~~~l~~~i~~~l~  225 (532)
                      .-.+.+.+.+.+   +...+|+|.|.=|+||||+.+.+.+.. +.. ..--..+|+....    ..-...++..|..++.
T Consensus         3 ~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L-~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~   81 (325)
T PF07693_consen    3 PYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEEL-KEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLE   81 (325)
T ss_pred             HHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHH-hcccccceeeEEEccccCCCcchHHHHHHHHHHHHHH
Confidence            345566666665   468899999999999999999999988 333 1112233333222    2234566777777766


Q ss_pred             CC
Q 009534          226 LC  227 (532)
Q Consensus       226 ~~  227 (532)
                      ..
T Consensus        82 ~~   83 (325)
T PF07693_consen   82 KH   83 (325)
T ss_pred             Hh
Confidence            53

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=90.79  E-value=0.32  Score=44.70  Aligned_cols=26  Identities=35%  Similarity=0.567  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         25 PSAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999998865

>PRK09183 transposase/IS protein; Provisional

Probab=90.77  E-value=0.2  Score=48.45  Aligned_cols=25  Identities=32%  Similarity=0.352  Sum_probs=21.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+.|+|+.|+|||+||.++.+..
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            4567799999999999999998775

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=90.76  E-value=0.57  Score=43.74  Aligned_cols=26  Identities=35%  Similarity=0.543  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +--+|+|+|..|.|||||.+.+..-.
T Consensus        29 ~GE~VaiIG~SGaGKSTLLR~lngl~   54 (258)
T COG3638          29 QGEMVAIIGPSGAGKSTLLRSLNGLV   54 (258)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhccc
Confidence            45689999999999999999998754

>PRK08356 hypothetical protein; Provisional

Probab=90.76  E-value=0.22  Score=45.90  Aligned_cols=21  Identities=38%  Similarity=0.393  Sum_probs=19.2

Q ss_pred             ceEEEEecCCCCcHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQI  188 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v  188 (532)
                      ..+|.|.|+.|+||||+|+.+
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l   25 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFF   25 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHH
Confidence            357899999999999999999

>cd04113 Rab4 Rab4 subfamily

Probab=90.74  E-value=0.21  Score=44.10  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=19.5

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|+|.+|+|||||++.+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999999987654

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

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

Probab=90.73  E-value=0.73  Score=50.03  Aligned_cols=46  Identities=24%  Similarity=0.302  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHhcc---------C---CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE---------E---PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~---------~---~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++-|.++-+++|.+-+.-         .   +..=|-.+|++|.|||-+|++|....
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc  729 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC  729 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc
Confidence            5678899999999988743         1   23446679999999999999998876

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=90.73  E-value=0.31  Score=44.32  Aligned_cols=83  Identities=16%  Similarity=0.207  Sum_probs=58.4

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCC--
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT--  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~--  399 (532)
                      +++|++|.+.+ +.+..+....-.-+++|+.|.+.+- ++..+.. ...        +..+|.|++|.+-++...+..  
T Consensus        63 l~rL~tLll~n-NrIt~I~p~L~~~~p~l~~L~LtnN-si~~l~d-l~p--------La~~p~L~~Ltll~Npv~~k~~Y  131 (233)
T KOG1644|consen   63 LPRLHTLLLNN-NRITRIDPDLDTFLPNLKTLILTNN-SIQELGD-LDP--------LASCPKLEYLTLLGNPVEHKKNY  131 (233)
T ss_pred             ccccceEEecC-CcceeeccchhhhccccceEEecCc-chhhhhh-cch--------hccCCccceeeecCCchhcccCc
Confidence            46699999988 4578776553356778999999873 4444421 111        236899999999998655532  


Q ss_pred             ---chhcCCCcceeeeccc
Q 009534          400 ---WLILAPNLKLIQMYDC  415 (532)
Q Consensus       400 ---~l~~l~~L~~L~l~~c  415 (532)
                         .+..+|+|++|+..+-
T Consensus       132 R~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  132 RLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             eeEEEEecCcceEeehhhh
Confidence               3788999999998653

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=90.72  E-value=0.21  Score=43.84  Aligned_cols=23  Identities=35%  Similarity=0.548  Sum_probs=19.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|..|+|||||.+++.+..
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~   25 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNH   25 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37889999999999999987654

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=90.71  E-value=0.33  Score=45.74  Aligned_cols=36  Identities=28%  Similarity=0.241  Sum_probs=28.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      .-.+++|+|..|.|||||++.+..-.    ....+.+++.
T Consensus        33 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~i~~~   68 (224)
T TIGR02324        33 AGECVALSGPSGAGKSTLLKSLYANY----LPDSGRILVR   68 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCCeEEEe
Confidence            34689999999999999999998865    2344555553

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.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.70  E-value=0.35  Score=52.20  Aligned_cols=46  Identities=24%  Similarity=0.287  Sum_probs=39.4

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+..++.+.+.+..++ ...+-++|+.|+||||+|+.+....
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L   62 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKAL   62 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            457999888888888888765 4678889999999999999998877

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

Probab=90.70  E-value=0.72  Score=46.30  Aligned_cols=65  Identities=25%  Similarity=0.240  Sum_probs=46.3

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      ..++|.++.+..+...+..+  +-+-+.|..|+|||++|+.+....   .   -...+|.+.......++...
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~--~~vll~G~PG~gKT~la~~lA~~l---~---~~~~~i~~t~~l~p~d~~G~   88 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG--GHVLLEGPPGVGKTLLARALARAL---G---LPFVRIQCTPDLLPSDLLGT   88 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC--CCEEEECCCCccHHHHHHHHHHHh---C---CCeEEEecCCCCCHHHhcCc
Confidence            34789888888887777654  446678999999999999999987   2   23345555655555554443

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=90.69  E-value=0.98  Score=42.97  Aligned_cols=49  Identities=18%  Similarity=0.143  Sum_probs=36.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESI  220 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i  220 (532)
                      .-.++-|.|.+|+|||++|..+.....   ..-+.++||+...  +..++.+.+
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~---~~ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGL---QMGEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH---HcCCcEEEEEeeC--CHHHHHHHH
Confidence            568899999999999999998755542   3346788888755  555555553

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=90.69  E-value=0.32  Score=46.33  Aligned_cols=35  Identities=29%  Similarity=0.196  Sum_probs=27.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||++.+..-.    ....+.+++
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   60 (240)
T PRK09493         26 QGEVVVIIGPSGSGKSTLLRCINKLE----EITSGDLIV   60 (240)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            34689999999999999999998765    234455555

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=90.68  E-value=0.33  Score=48.12  Aligned_cols=39  Identities=23%  Similarity=0.263  Sum_probs=33.7

Q ss_pred             cccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHH
Q 009534          150 VGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQI  188 (532)
Q Consensus       150 vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v  188 (532)
                      -+|+.+..--+++|.++++..|++.|.+|.|||.||-+.
T Consensus       227 ~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaA  265 (436)
T COG1875         227 RPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAA  265 (436)
T ss_pred             CcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHH
Confidence            456667777788899999999999999999999999774

>PRK10908 cell division protein FtsE; Provisional

Probab=90.65  E-value=0.34  Score=45.60  Aligned_cols=35  Identities=34%  Similarity=0.347  Sum_probs=27.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|+|||||.+.+....    ....+.+++
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~   61 (222)
T PRK10908         27 PGEMAFLTGHSGAGKSTLLKLICGIE----RPSAGKIWF   61 (222)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEE
Confidence            45789999999999999999998765    233455554

>PLN02318 phosphoribulokinase/uridine kinase

Probab=90.64  E-value=0.23  Score=52.83  Aligned_cols=27  Identities=30%  Similarity=0.501  Sum_probs=24.2

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.+|+|.|..|.||||+|+.+....
T Consensus        63 ~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         63 DGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             CCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            467899999999999999999998765

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=90.64  E-value=0.33  Score=46.84  Aligned_cols=26  Identities=31%  Similarity=0.391  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+....
T Consensus        37 ~Ge~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         37 AGQFVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998765

>cd04159 Arl10_like Arl10-like subfamily

Probab=90.63  E-value=0.18  Score=43.89  Aligned_cols=22  Identities=36%  Similarity=0.519  Sum_probs=19.7

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |+|+|..|+|||||.+.+....
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~   23 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQ   23 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCC
Confidence            6899999999999999997763

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=90.63  E-value=0.18  Score=43.39  Aligned_cols=23  Identities=30%  Similarity=0.356  Sum_probs=19.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|.+|+|||||..++....
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCc
Confidence            37899999999999999987654

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>PRK14531 adenylate kinase; Provisional

Probab=90.60  E-value=0.24  Score=45.03  Aligned_cols=24  Identities=21%  Similarity=0.245  Sum_probs=21.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..|.|.|+.|.||||+++.+....
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999998876

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=90.60  E-value=0.2  Score=48.81  Aligned_cols=23  Identities=39%  Similarity=0.784  Sum_probs=21.1

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++|.|..|+||||+++.+....
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll   23 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLF   23 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhh
Confidence            58999999999999999998776

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

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

Probab=90.58  E-value=0.39  Score=53.49  Aligned_cols=46  Identities=26%  Similarity=0.430  Sum_probs=37.3

Q ss_pred             CcccccHHHHHHHHHHhcc--------C-CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE--------E-PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--------~-~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+.+.+..        + ....+-++|+.|+|||++|+.+....
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l  512 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999998888762        1 24567889999999999999998776

>PRK06526 transposase; Provisional

Probab=90.58  E-value=0.21  Score=48.09  Aligned_cols=25  Identities=28%  Similarity=0.230  Sum_probs=22.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-+-++|++|+|||+||..+....
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHH
Confidence            4568899999999999999998876

>cd04163 Era Era subfamily

Probab=90.58  E-value=0.23  Score=43.59  Aligned_cols=24  Identities=38%  Similarity=0.592  Sum_probs=21.2

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      ..+|+++|..|+||||+.+.+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999998665

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>smart00175 RAB Rab subfamily of small GTPases

Probab=90.57  E-value=0.21  Score=44.09  Aligned_cols=22  Identities=36%  Similarity=0.614  Sum_probs=19.8

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||++.+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998654

Rab GTPases are implicated in vesicle trafficking.

>cd00876 Ras Ras family

Probab=90.56  E-value=0.21  Score=43.67  Aligned_cols=21  Identities=38%  Similarity=0.634  Sum_probs=19.0

Q ss_pred             EEEecCCCCcHHHHHHHHHHh
Q 009534          171 VGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~  191 (532)
                      |.|+|..|+|||||...+...
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999998765

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=90.53  E-value=0.2  Score=43.33  Aligned_cols=23  Identities=30%  Similarity=0.390  Sum_probs=20.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|+++|..|+|||||+..+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999997765

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=90.50  E-value=0.34  Score=45.69  Aligned_cols=26  Identities=35%  Similarity=0.562  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|.|..|.|||||++.+..-.
T Consensus        47 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   72 (224)
T cd03220          47 RGERIGLIGRNGAGKSTLLRLLAGIY   72 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45789999999999999999998765

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>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=90.48  E-value=0.31  Score=46.31  Aligned_cols=26  Identities=46%  Similarity=0.653  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219          25 PGEIHGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            34689999999999999999998764

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).

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=90.47  E-value=0.38  Score=42.83  Aligned_cols=35  Identities=23%  Similarity=0.272  Sum_probs=27.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|.|..|.|||||.+.+....    ....+.+++
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~   59 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLY----KPDSGEILV   59 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEE
Confidence            35689999999999999999998765    334555555

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.

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

Probab=90.46  E-value=0.24  Score=46.66  Aligned_cols=26  Identities=35%  Similarity=0.415  Sum_probs=22.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .--.++|+|+.|+|||||.+.+..-.
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999986544

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

Probab=90.46  E-value=0.47  Score=48.87  Aligned_cols=46  Identities=20%  Similarity=0.190  Sum_probs=35.9

Q ss_pred             CcccccHHHHHHHHHHhc-------c---C--------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT-------E---E--------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~-------~---~--------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+...+.       .   .        ....+-++|+.|+|||++|+.+....
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhc
Confidence            467999999988876651       1   1        12468899999999999999998766

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	532
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-22
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-10
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-09
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-05
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	7e-05
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	6e-04
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-04
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-04

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 99.2 bits (246), Expect = 6e-22
 Identities = 91/561 (16%), Positives = 169/561 (30%), Gaps = 152/561 (27%)

Query: 19  LDCIVSKAGYICHLKDNLYALRTDFQKLIEARN--DVQIRVIVAEQRQMRRLQQVQGWLS 76
           +D    +  Y    KD L      F    + ++  D+   ++  E+              
Sbjct: 7   MDFETGEHQY--QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEE-------------- 50

Query: 77  RVQDVEKEVPRLSRKINL-GGFCS--GNCVERYKDGKRVVELLKN-----VQSLRKE--- 125
            +  +      +S  + L     S     V+++     V E+L+      +  ++ E   
Sbjct: 51  -IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF-----VEEVLRINYKFLMSPIKTEQRQ 104

Query: 126 --GDFKDVAQTVPENPVDERPLPPTVVGLQSTLDRVWRCLTE-EPVGIVGLYGMGGVGKT 182
                +   +       D +      V       ++ + L E  P   V + G+ G GKT
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT 164

Query: 183 TLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQ--ESIAKKI-GLCNESWDSKSFDEK 239
            +   +  S+         + W      L L      E++ + +  L  +       D  
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFW------LNLKNCNSPETVLEMLQKLLYQ------IDPN 212

Query: 240 AQEIFKTMRNTKFLISNLKMLEALRMFKCGSREQESDSILSGGSLVL--VEELLGLKHLN 297
                    N K  I +++    LR        +     L    LVL  V+        N
Sbjct: 213 WTSRSDHSSNIKLRIHSIQ--AELRRLLKSKPYENC---L----LVLLNVQNAKAWNAFN 263

Query: 298 ----VLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEAL 353
               +L  T   F  +   L+  +   I  +  S++LT     S L           + L
Sbjct: 264 LSCKILLTT--RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL----------KYL 311

Query: 354 DMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH--VTWLILAPNLKLIQ 411
           D R  +DL          EV          +  ++SI    +R    TW          +
Sbjct: 312 DCR-PQDLPR--------EVLTT-------NPRRLSIIAESIRDGLATW-------DNWK 348

Query: 412 MYDCRCLEEII--SLEKLGEVPSEEMQNL------------IPFARLERLSLGGLEN--- 454
             +C  L  II  SL  L      E + +            IP   L  +    +++   
Sbjct: 349 HVNCDKLTTIIESSLNVL---EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM 405

Query: 455 --LRSIYPRALPFPHLKE-------LHVTLCPKLKKLPFDCTSGHERKLI----IKGQEE 501
             +  ++  +L     KE       +++ L  KL+       + H R ++    I    +
Sbjct: 406 VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEY----ALH-RSIVDHYNIPKTFD 460

Query: 502 WWN-NLQWDDQATQNAFLPYF 521
             +    + DQ        YF
Sbjct: 461 SDDLIPPYLDQ--------YF 473

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score = 62.3 bits (151), Expect = 2e-10
 Identities = 39/244 (15%), Positives = 73/244 (29%), Gaps = 22/244 (9%)

Query: 32  LKDNLYALRTDFQ------KLIEARNDVQIRVIVAEQRQMRRLQQVQGWLSRVQDVEKEV 85
           L      L  DF+       L       +    +  +    RL+++  +L   +    E+
Sbjct: 10  LSTAHTRLIHDFEPRDALTYLEGKNIFTEDHSELISK-MSTRLERIANFLRIYRRQASEL 68

Query: 86  PRLSRKINLGGFCSGNCVERYKDGKRVVELLKNVQSLRKEGDFKDVAQTVPENPVDER-- 143
             L        F   N        +  ++   N   L +             +       
Sbjct: 69  GPLIDF-----FNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGN 123

Query: 144 -PLPPTVVGLQSTLDRVWRCLTE---EPVGIVGLYGMGGVGKTTLLTQI-NNSFLHTPNN 198
            P   T    +  +DRV + L E        + L+G  G GK+ + +Q  + S      N
Sbjct: 124 VPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGIN 183

Query: 199 FDFVIWEVVSRDL--QLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISN 256
           +D ++W   S         +   I   +   ++  +  S +     + K M     LI  
Sbjct: 184 YDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMI-CNALIDR 242

Query: 257 LKML 260
              L
Sbjct: 243 PNTL 246

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 59.5 bits (144), Expect = 2e-09
 Identities = 34/223 (15%), Positives = 79/223 (35%), Gaps = 24/223 (10%)

Query: 69  QQVQGWLSRVQDVEKEVPRLSRKINLGG--FCSGNCVERYKD-GKRVVELLKNVQSLRKE 125
           ++V+   ++ Q     +  + +K N     F +    E YKD    + + +  V S   +
Sbjct: 41  EKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGK 100

Query: 126 GDFKDVAQTVPENPVDER--PLPPTVVGLQSTLDRVWRCLT--EEPVGIVGLYGMGGVGK 181
                +   V     +      P   V  +  ++ + + L+  +   G V ++GM G GK
Sbjct: 101 DSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGK 160

Query: 182 TTLLTQINNSFLHTPNNF-DFVIWEVVSRDLQLGKI--QESIAKKIGLCNESWDSKSFD- 237
           + L  +           F   V W  V +  + G +   +++  ++            + 
Sbjct: 161 SVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNI 220

Query: 238 EKAQEI---FKTMRNTKFLISNLKML------EALRMFKCGSR 271
           E+A++        ++ + L+    +L        L+ F    +
Sbjct: 221 EEAKDRLRILMLRKHPRSLL----ILDDVWDSWVLKAFDSQCQ 259

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 45.6 bits (108), Expect = 4e-05
 Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 3/64 (4%)

Query: 144 PLPPTVVGLQSTLDRVWRCL--TEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF-D 200
             P   V  +  +  + + L       G V +YGM G GK+ L  +           F  
Sbjct: 121 QRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSG 180

Query: 201 FVIW 204
            V W
Sbjct: 181 GVHW 184

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 44.1 bits (104), Expect = 7e-05
 Identities = 24/130 (18%), Positives = 41/130 (31%), Gaps = 29/130 (22%)

Query: 254 ISNLKMLEALRMFKCGSREQESDSILSGGSLVLVEELLGLKHLN-----------VLTIT 302
           ++    L  L +  C      S+  L      L+     L  LN           V    
Sbjct: 138 LAKNSNLVRLNLSGC---SGFSEFALQ----TLLSSCSRLDELNLSWCFDFTEKHVQVAV 190

Query: 303 LHSFAALQRL--------LTYPSLQSIVSNTPSL---SLTNCRSLSSLSVLTLASLRHLE 351
            H    + +L        L    L ++V   P+L    L++   L +        L +L+
Sbjct: 191 AHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQ 250

Query: 352 ALDMRYCKDL 361
            L +  C D+
Sbjct: 251 HLSLSRCYDI 260

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 42.6 bits (100), Expect = 2e-04
 Identities = 21/104 (20%), Positives = 35/104 (33%), Gaps = 13/104 (12%)

Query: 255 SNLKMLEALRMFKCGSREQESDSILSGGSLVLVEELLGLKHLNVLTITLHSFAALQRLLT 314
              + +  L +     R+    S LS     LV     L HL++    +      Q    
Sbjct: 192 HVSETITQLNLSGY--RKNLQKSDLS----TLVRRCPNLVHLDLSDSVMLKNDCFQEFFQ 245

Query: 315 YPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYC 358
              LQ        LSL+ C  +   ++L L  +  L+ L +   
Sbjct: 246 LNYLQH-------LSLSRCYDIIPETLLELGEIPTLKTLQVFGI 282

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 37/250 (14%), Positives = 70/250 (28%), Gaps = 23/250 (9%)

Query: 246 TMRNTKFLISNLKMLEALRMFKCGSREQESDSILSGGSLVLVEELLGLKHLNVLT-ITLH 304
            +     L+     LE L      +   E    +  G  V +     L+ L+        
Sbjct: 223 PLEKLATLLQRAPQLEELGTGGYTA---EVRPDVYSGLSVALSGCKELRCLSGFWDAVPA 279

Query: 305 SFAA-------LQRL------LTYPSLQSIVSNTPSL-SLTNCRSLSSLSVLTLAS-LRH 349
              A       L  L      +    L  ++   P L  L     +    +  LAS  + 
Sbjct: 280 YLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVLASTCKD 339

Query: 350 LEALDMRYCKDLEEMEIDYAGGE-VKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLK 408
           L  L +   +            + +  +  + G   L  V  +  ++ +   + +A N  
Sbjct: 340 LRELRVFPSEPFVMEPNVALTEQGLVSV--SMGCPKLESVLYFCRQMTNAALITIARNRP 397

Query: 409 LIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFA-RLERLSLGGLENLRSIYPRALPFPH 467
            +  +    +E         E        ++     L RLSL GL   +           
Sbjct: 398 NMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIGTYAKK 457

Query: 468 LKELHVTLCP 477
           ++ L V    
Sbjct: 458 MEMLSVAFAG 467

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 41.4 bits (97), Expect = 6e-04
 Identities = 19/128 (14%), Positives = 42/128 (32%), Gaps = 19/128 (14%)

Query: 251 KFLISNLKMLEALRMFKCGSR--EQESDSILSGGSLVLVEELLGLKHLNV-LTITLHSFA 307
             +  N   +   R+     +  +  +   L  G   +VE    L+ L++   +T   F 
Sbjct: 390 ITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFE 449

Query: 308 A-------LQRL------LTYPSLQSIVSNTPSL---SLTNCRSLSSLSVLTLASLRHLE 351
                   ++ L       +   +  ++S   SL    + +C       +   + L  + 
Sbjct: 450 YIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMR 509

Query: 352 ALDMRYCK 359
           +L M  C 
Sbjct: 510 SLWMSSCS 517

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 19/128 (14%), Positives = 38/128 (29%), Gaps = 22/128 (17%)

Query: 253 LISNLKMLEALRMFKCGSREQESDSILSGGSLVLVEELLGLKHLNVL----TITLHSFAA 308
           + + LK L   R+      E+ +D  L  G   L+     L+          +T    + 
Sbjct: 398 IGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLTDLGLSY 457

Query: 309 LQRL-------------LTYPSLQSIVSNTPSL---SLTNCRSLSSLSVLTLA-SLRHLE 351
           + +               +   L       P+L    +  C   S  ++      L  L 
Sbjct: 458 IGQYSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGC-CFSERAIAAAVTKLPSLR 516

Query: 352 ALDMRYCK 359
            L ++  +
Sbjct: 517 YLWVQGYR 524

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 41.5 bits (98), Expect = 5e-04
 Identities = 49/277 (17%), Positives = 96/277 (34%), Gaps = 61/277 (22%)

Query: 254 ISNLKMLEALRMFKCGSREQESDS------ILSGGSLVLVEELLG-LKHLNVLTITLHS- 305
           +S  +        +  S  ++++S        +G +L    +LL        + + L S 
Sbjct: 32  LSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALELRSV 91

Query: 306 -----------FAALQRL-LTYPSLQSIVSNTPSLSLTNCRSLSSLSV----LT-----L 344
                       + LQ + +    L  +    P  ++     L +L++    L      +
Sbjct: 92  PLPQFPDQAFRLSHLQHMTIDAAGLMEL----PD-TMQQFAGLETLTLARNPLRALPASI 146

Query: 345 ASLRHLEALDMRYCKDLEEM--EIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHV-TWL 401
           ASL  L  L +R C +L E+   +           E  G  +L  + +  + +R +   +
Sbjct: 147 ASLNRLRELSIRACPELTELPEPL----ASTDASGEHQGLVNLQSLRLEWTGIRSLPASI 202

Query: 402 ILAPNLKLIQMYDCR------CLEEIISLE--------KLGEVPSEEMQNLIPFARLERL 447
               NLK +++ +         +  +  LE         L   P            L+RL
Sbjct: 203 ANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYP-PIFGGRA---PLKRL 258

Query: 448 SLGGLENLRSIYPRALP-FPHLKELHVTLCPKLKKLP 483
            L    NL ++ P  +     L++L +  C  L +LP
Sbjct: 259 ILKDCSNLLTL-PLDIHRLTQLEKLDLRGCVNLSRLP 294

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	532
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.63
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.58
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.52
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.44
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.36
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.34
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.32
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.27
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.22
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.2
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.2
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.19
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.19
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.18
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.13
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.12
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.11
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.1
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.09
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.09
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.06
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.06
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.06
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.06
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.05
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.03
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.03
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.02
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.01
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.01
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.01
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.01
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.01
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.0
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.0
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	98.99
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	98.98
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	98.98
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.98
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	98.97
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	98.97
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.97
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	98.97
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	98.97
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	98.97
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	98.96
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	98.95
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	98.95
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	98.95
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	98.94
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	98.94
3e6j_A	229	Variable lymphocyte receptor diversity region; var	98.93
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	98.93
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	98.93
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	98.92
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	98.92
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	98.91
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.9
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	98.9
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.9
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	98.89
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	98.89
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	98.89
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	98.89
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.88
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	98.88
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	98.85
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.85
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	98.84
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	98.84
1o6v_A	466	Internalin A; bacterial infection, extracellular r	98.84
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.84
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	98.84
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.83
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	98.81
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	98.81
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	98.81
1o6v_A	466	Internalin A; bacterial infection, extracellular r	98.8
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	98.8
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	98.8
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	98.79
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	98.79
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	98.78
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	98.78
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.78
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.78
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	98.76
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	98.76
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	98.75
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	98.73
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	98.72
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	98.71
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	98.69
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.68
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	98.67
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.66
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	98.64
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	98.64
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	98.63
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	98.62
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.62
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	98.61
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	98.6
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.6
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	98.6
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.57
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	98.57
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	98.55
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.51
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.5
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.5
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	98.49
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	98.49
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	98.47
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	98.46
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.44
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.43
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	98.43
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.43
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.43
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.41
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.39
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	98.36
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	98.35
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.35
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	98.34
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.33
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	98.3
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.3
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	98.19
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.14
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.14
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.13
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.1
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.09
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.09
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.05
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.05
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.04
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.04
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.02
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.01
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.01
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.97
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	97.93
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	97.9
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	97.87
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.87
2fna_A	357	Conserved hypothetical protein; structural genomic	97.71
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	97.69
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	97.66
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.66
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.58
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.57
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.45
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.43
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.23
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.11
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.09
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	97.09
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	96.96
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	96.73
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	96.72
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.61
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.53
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.51
3bos_A	242	Putative DNA replication factor; P-loop containing	96.38
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	96.28
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.21
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.18
2chq_A	319	Replication factor C small subunit; DNA-binding pr	96.17
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.16
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.13
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.11
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.1
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.06
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.04
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.04
3pvs_A	447	Replication-associated recombination protein A; ma	96.0
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	95.99
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	95.84
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.83
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.81
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	95.79
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.79
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.78
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.77
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.74
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.7
3co5_A	143	Putative two-component system transcriptional RES	95.68
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.65
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.64
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.58
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.45
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.45
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	95.4
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.38
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.29
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.29
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	95.22
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.21
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.21
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.18
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.18
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.17
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.16
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	95.15
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.13
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	95.12
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.07
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.07
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.98
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	94.92
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	94.9
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	94.89
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	94.88
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	94.85
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	94.77
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.77
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.71
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.68
2r44_A	331	Uncharacterized protein; putative ATPase, structur	94.67
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	94.58
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	94.58
2cvh_A	220	DNA repair and recombination protein RADB; filamen	94.53
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	94.53
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	94.52
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	94.5
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.5
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	94.45
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.35
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	94.34
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	94.32
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.32
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	94.3
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	94.27
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.26
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.2
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.19
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	94.16
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	94.14
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.14
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	94.13
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	94.13
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	94.13
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	94.12
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.09
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	94.07
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	94.04
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	94.03
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	94.02
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	94.01
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	93.99
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	93.95
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	93.94
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	93.93
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.89
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	93.86
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	93.81
1via_A	175	Shikimate kinase; structural genomics, transferase	93.78
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	93.77
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	93.77
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.75
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	93.75
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.73
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.73
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.7
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	93.7
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	93.69
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	93.69
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	93.67
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.67
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	93.66
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.57
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	93.54
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	93.53
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	93.52
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	93.51
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	93.5
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	93.43
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	93.43
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	93.43
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	93.42
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	93.41
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	93.4
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	93.38
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.36
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	93.36
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	93.35
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	93.34
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	93.31
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	93.31
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	93.3
2vli_A	183	Antibiotic resistance protein; transferase, tunica	93.28
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	93.27
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	93.26
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	93.22
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	93.21
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	93.2
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	93.18
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	93.18
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	93.16
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	93.13
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.11
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	93.07
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	93.05
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	93.03
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	93.03
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.03
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	93.02
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	92.98
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	92.98
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	92.98
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	92.98
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	92.94
2xxa_A	433	Signal recognition particle protein; protein trans	92.92
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	92.88
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	92.87
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	92.87
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	92.86
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	92.86
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	92.79
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	92.73
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	92.73
4a74_A	231	DNA repair and recombination protein RADA; hydrola	92.62
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	92.56
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.54
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	92.54
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	92.54
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	92.48
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	92.47
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	92.45
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	92.42
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	92.41
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	92.41
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	92.33
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	92.31
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	92.26
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	92.21
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	92.21
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	92.19
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	92.17
2qgz_A	308	Helicase loader, putative primosome component; str	92.13
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	92.12
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	92.02
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	92.01
1b0u_A	262	Histidine permease; ABC transporter, transport pro	92.01
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	91.94
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	91.89
1u94_A	356	RECA protein, recombinase A; homologous recombinat	91.88
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	91.85
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	91.78
4gt6_A	394	Cell surface protein; leucine rich repeats, putati	91.77
1sgw_A	214	Putative ABC transporter; structural genomics, P p	91.76
1ji0_A	240	ABC transporter; ATP binding protein, structural g	91.75
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	91.74
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	91.73
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	91.72
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	91.71
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	91.7
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	91.68
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	91.67
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	91.67
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	91.66
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	91.63
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	91.61
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	91.57
1g6h_A	257	High-affinity branched-chain amino acid transport	91.55
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	91.54
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	91.5
1tue_A	212	Replication protein E1; helicase, replication, E1E	91.49
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	91.49
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	91.46
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	91.45
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	91.44
2z43_A	324	DNA repair and recombination protein RADA; archaea	91.43
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	91.43
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	91.41
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.4
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	91.4
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	91.39
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	91.34
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	91.33
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	91.31
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	91.27
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	91.23
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	91.23
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	91.22
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	91.22
3end_A	307	Light-independent protochlorophyllide reductase ir	91.18
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	91.13
1xp8_A	366	RECA protein, recombinase A; recombination, radior	91.09
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	91.09
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	91.08
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	91.06
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	91.04
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	91.03
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	90.98
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	90.93
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	90.92
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	90.88
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	90.88
2wji_A	165	Ferrous iron transport protein B homolog; membrane	90.81
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	90.8
2og2_A	359	Putative signal recognition particle receptor; nuc	90.77
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	90.67
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	90.64
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	90.64
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	90.57
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	90.53
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	90.52
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	90.48
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	90.43
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	90.36
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	90.36
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	90.32
2ghi_A	260	Transport protein; multidrug resistance protein, M	90.32
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	90.31
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	90.29
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	90.27
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	90.27
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	90.22
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	90.22
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	90.18
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	90.17
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	90.17
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	90.02
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	90.01
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	89.99
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	89.93
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	89.92
2eyu_A	261	Twitching motility protein PILT; pilus retraction	89.87
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	89.87
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	89.87
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	89.83
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.82
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	89.77
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	89.77
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	89.76
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	89.73
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	89.65
1p9r_A	418	General secretion pathway protein E; bacterial typ	89.55
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	89.55
2ged_A	193	SR-beta, signal recognition particle receptor beta	89.49
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	89.48
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	89.48
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	89.46
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	89.42
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	89.4
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	89.29
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	89.28
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	89.25
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	89.25
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	89.21
3io5_A	333	Recombination and repair protein; storage dimer, i	89.2
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	89.14
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	89.14
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	89.11
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	89.11
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	89.04
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	89.04
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	89.01
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	88.99
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	88.98
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	88.97
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	88.96
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	88.92
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	88.91
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	88.85
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	88.84
3kta_A	182	Chromosome segregation protein SMC; structural mai	88.8
1nrj_B	218	SR-beta, signal recognition particle receptor beta	88.75
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	88.75
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	88.74
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	88.74
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	88.69
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	88.68
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	88.66
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	88.65
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	88.61
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	88.57
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	88.56
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	88.52
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	88.52
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	88.5
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	88.49
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	88.49
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	88.44
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	88.43
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	88.42
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	88.4
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	88.33
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	88.32
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	88.31

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.63  E-value=1.3e-15  Score=152.07  Aligned_cols=163  Identities=20%  Similarity=0.247  Sum_probs=118.6

Q ss_pred             ccCCCeEEEecCCCCCcccccc--------ccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLT--------LASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS  393 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~--------l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c  393 (532)
                      +++|++|++++|..+..+|...        +..+++|+.|+++++ .+..+|..           ...+++|++|++++|
T Consensus       149 l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n-~l~~lp~~-----------l~~l~~L~~L~L~~N  216 (328)
T 4fcg_A          149 LNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPAS-----------IANLQNLKSLKIRNS  216 (328)
T ss_dssp             CTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEE-CCCCCCGG-----------GGGCTTCCEEEEESS
T ss_pred             CcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCC-CcCcchHh-----------hcCCCCCCEEEccCC
Confidence            3445555555555555554331        122555555555554 33334332           335888999999988


Q ss_pred             ccccCCc-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEe
Q 009534          394 KLRHVTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELH  472 (532)
Q Consensus       394 ~L~~l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~  472 (532)
                      .+..+|. +..+++|+.|++++|.....++.             .+..+++|++|++++|..+..+|.....+++|+.|+
T Consensus       217 ~l~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~-------------~~~~l~~L~~L~L~~n~~~~~~p~~~~~l~~L~~L~  283 (328)
T 4fcg_A          217 PLSALGPAIHHLPKLEELDLRGCTALRNYPP-------------IFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLD  283 (328)
T ss_dssp             CCCCCCGGGGGCTTCCEEECTTCTTCCBCCC-------------CTTCCCCCCEEECTTCTTCCBCCTTGGGCTTCCEEE
T ss_pred             CCCcCchhhccCCCCCEEECcCCcchhhhHH-------------HhcCCCCCCEEECCCCCchhhcchhhhcCCCCCEEe
Confidence            7777764 77888999999988887777766             788899999999999999999998889999999999


Q ss_pred             ecCCCCCCCCCCCCCCCCCceeEEecchhhhhhcccCc
Q 009534          473 VTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNNLQWDD  510 (532)
Q Consensus       473 i~~C~~L~~lp~~~~~~l~~L~~~~~~~~w~~~l~w~~  510 (532)
                      +++|+.+..+|...... +.|+...++..+...+.+..
T Consensus       284 L~~n~~~~~iP~~l~~L-~~L~~l~l~~~~~~~l~~~~  320 (328)
T 4fcg_A          284 LRGCVNLSRLPSLIAQL-PANCIILVPPHLQAQLDQHR  320 (328)
T ss_dssp             CTTCTTCCCCCGGGGGS-CTTCEEECCGGGSCC-----
T ss_pred             CCCCCchhhccHHHhhc-cCceEEeCCHHHHHHHhhhh
Confidence            99999999999877666 88999999988877776554

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=99.58  E-value=7e-15  Score=156.93  Aligned_cols=108  Identities=19%  Similarity=0.123  Sum_probs=90.9

Q ss_pred             CcccccHHHHHHHHHHhccC---CceEEEEecCCCCcHHHHHHHHHH--hccCCCCCCCeEEEEEeCCCC--CHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTEE---PVGIVGLYGMGGVGKTTLLTQINN--SFLHTPNNFDFVIWEVVSRDL--QLGKIQES  219 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~--~~~~~~~~F~~~~wv~v~~~~--~~~~l~~~  219 (532)
                      +..+||++++++|.++|..+   +.++|+|+||||+||||||+.+|+  +. +++.+|++++||++++.+  ++..+++.
T Consensus       128 ~~~~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~  206 (549)
T 2a5y_B          128 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTD  206 (549)
T ss_dssp             CCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CccCCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHH
Confidence            33369999999999999754   689999999999999999999998  45 568899999999999875  89999999


Q ss_pred             HHHHhcCCCC-----CCCCCCHHHHHHHHHHHhcCC-cEEEe
Q 009534          220 IAKKIGLCNE-----SWDSKSFDEKAQEIFKTMRNT-KFLIS  255 (532)
Q Consensus       220 i~~~l~~~~~-----~~~~~~~~~~~~~l~~~L~~k-r~LlV  255 (532)
                      |+.+++....     .....+...+...+++.|+++ |||||
T Consensus       207 il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlV  248 (549)
T 2a5y_B          207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFV  248 (549)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEE
T ss_pred             HHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEE
Confidence            9999986521     112335667789999999996 99999

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.52  E-value=7.6e-14  Score=139.12  Aligned_cols=189  Identities=23%  Similarity=0.313  Sum_probs=144.6

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      +...+..+++|++|+++-...   ..++   .....+++|++|+++++. +..+|.. +..+++|++|++++|..+..+|
T Consensus        96 lp~~l~~l~~L~~L~L~~n~l---~~lp---~~~~~l~~L~~L~Ls~n~-l~~lp~~-l~~l~~L~~L~L~~n~~~~~~p  167 (328)
T 4fcg_A           96 FPDQAFRLSHLQHMTIDAAGL---MELP---DTMQQFAGLETLTLARNP-LRALPAS-IASLNRLRELSIRACPELTELP  167 (328)
T ss_dssp             CCSCGGGGTTCSEEEEESSCC---CCCC---SCGGGGTTCSEEEEESCC-CCCCCGG-GGGCTTCCEEEEEEETTCCCCC
T ss_pred             cChhhhhCCCCCEEECCCCCc---cchh---HHHhccCCCCEEECCCCc-cccCcHH-HhcCcCCCEEECCCCCCccccC
Confidence            444566788999999653222   2333   233456789999999975 7788765 8899999999999998888776


Q ss_pred             ecccCCccccccccCCCCCccEEEEeCCccccCCc-hhcCCCcceeeeccccccccccccccccCcCcccCccccccccc
Q 009534          366 IDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARL  444 (532)
Q Consensus       366 ~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L  444 (532)
                      .....  .........+++|++|++++|+++.+|. +..+++|++|++++|. +..++.             .+..+++|
T Consensus       168 ~~~~~--~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l~~L~~L~L~~N~-l~~l~~-------------~l~~l~~L  231 (328)
T 4fcg_A          168 EPLAS--TDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSP-LSALGP-------------AIHHLPKL  231 (328)
T ss_dssp             SCSEE--EC-CCCEEESTTCCEEEEEEECCCCCCGGGGGCTTCCEEEEESSC-CCCCCG-------------GGGGCTTC
T ss_pred             hhHhh--ccchhhhccCCCCCEEECcCCCcCcchHhhcCCCCCCEEEccCCC-CCcCch-------------hhccCCCC
Confidence            54311  0001112358999999999998888875 8899999999998875 666766             78889999


Q ss_pred             ceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecc
Q 009534          445 ERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       445 ~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      +.|++++|.....+|.....+++|+.|++++|..+..+|...... .+|+..+..
T Consensus       232 ~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~~~~~~p~~~~~l-~~L~~L~L~  285 (328)
T 4fcg_A          232 EELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRL-TQLEKLDLR  285 (328)
T ss_dssp             CEEECTTCTTCCBCCCCTTCCCCCCEEECTTCTTCCBCCTTGGGC-TTCCEEECT
T ss_pred             CEEECcCCcchhhhHHHhcCCCCCCEEECCCCCchhhcchhhhcC-CCCCEEeCC
Confidence            999999999999999888999999999999999999999875544 455544433

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.44  E-value=1.3e-13  Score=114.22  Aligned_cols=75  Identities=12%  Similarity=0.121  Sum_probs=69.0

Q ss_pred             chhhHHHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhchHHHHHHHHHHHHHHHHHHHH
Q 009534           10 SCDGTISRCLDCIVSKAGYICHLKDNLYALRTDFQKLIEARNDVQIRVIVAEQRQ-MRRLQQVQGWLSRVQDVEKEVPRL   88 (532)
Q Consensus        10 ~~~~v~~kl~~~~~~~~~~~~~~~~~~~~L~~~l~~l~~~l~~v~~~i~~ae~~~-~~~~~~~~~Wl~~lr~~~~d~ed~   88 (532)
                      +++++++|+.+++.+|+..+.+++++++.|+++|+.|+++|.+       |+.+. ...+++++.|+.+||+++||+||+
T Consensus         2 ~v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~d-------a~~~~~~~~d~~vk~W~~~vrdlaYD~ED~   74 (115)
T 3qfl_A            2 AISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIK-------IGEVPREQLDSQDKLWADEVRELSYVIEDV   74 (115)
T ss_dssp             TTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HTTSCGGGCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH-------HHHhccccCCHHHHHHHHHHHHHHHHHHHH
Confidence            5678999999999999999999999999999999999999998       77763 234799999999999999999999


Q ss_pred             Hhc
Q 009534           89 SRK   91 (532)
Q Consensus        89 id~   91 (532)
                      +|+
T Consensus        75 iD~   77 (115)
T 3qfl_A           75 VDK   77 (115)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            999

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.36  E-value=2.7e-12  Score=121.69  Aligned_cols=178  Identities=13%  Similarity=0.132  Sum_probs=126.2

Q ss_pred             cCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccc
Q 009534          295 HLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVK  374 (532)
Q Consensus       295 ~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~  374 (532)
                      +|+.|+++-...   ..++.  .....+++|++|+++++..++.++...+..+++|++|++++|..++.++.....    
T Consensus        32 ~l~~L~l~~n~l---~~i~~--~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~----  102 (239)
T 2xwt_C           32 STQTLKLIETHL---RTIPS--HAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALK----  102 (239)
T ss_dssp             TCCEEEEESCCC---SEECT--TTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEE----
T ss_pred             cccEEEEeCCcc---eEECH--HHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhC----
Confidence            677777553222   22222  112235679999999876688888766888889999999887788877755443    


Q ss_pred             cccccCCCCCccEEEEeCCccccCCchhcCCCcc---eeeeccccccccccccccccCcCcccCcccccccccc-eeecc
Q 009534          375 RIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLK---LIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLE-RLSLG  450 (532)
Q Consensus       375 ~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~---~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~-~L~l~  450 (532)
                            .+++|++|++++|.++.+|.+..+++|+   .|++++++.+..++.            ..+..+++|+ .|++.
T Consensus       103 ------~l~~L~~L~l~~n~l~~lp~~~~l~~L~~L~~L~l~~N~~l~~i~~------------~~~~~l~~L~~~L~l~  164 (239)
T 2xwt_C          103 ------ELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPV------------NAFQGLCNETLTLKLY  164 (239)
T ss_dssp             ------CCTTCCEEEEEEECCCSCCCCTTCCBCCSEEEEEEESCTTCCEECT------------TTTTTTBSSEEEEECC
T ss_pred             ------CCCCCCEEeCCCCCCccccccccccccccccEEECCCCcchhhcCc------------ccccchhcceeEEEcC
Confidence                  5888899999888888887777777777   888888756777765            2466778888 88887


Q ss_pred             ccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCC-CceeEEecch
Q 009534          451 GLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGH-ERKLIIKGQE  500 (532)
Q Consensus       451 ~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l-~~L~~~~~~~  500 (532)
                      ++ .++.+|...+..++|+.|++.+|++++.+|......+ ..|+..+...
T Consensus       165 ~n-~l~~i~~~~~~~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~  214 (239)
T 2xwt_C          165 NN-GFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQ  214 (239)
T ss_dssp             SC-CCCEECTTTTTTCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTT
T ss_pred             CC-CCcccCHhhcCCCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCC
Confidence            75 4667777665557888888888877888876544444 5666666554

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.34  E-value=6.3e-12  Score=130.96  Aligned_cols=151  Identities=19%  Similarity=0.191  Sum_probs=113.8

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL  401 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l  401 (532)
                      +++|++|+++++. +..++...+..+++|+.|++++|..+..++.....          .+++|++|++++|+++.+|.+
T Consensus       146 l~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~----------~l~~L~~L~L~~n~l~~~~~~  214 (452)
T 3zyi_A          146 LSKLRELWLRNNP-IESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFE----------GLFNLKYLNLGMCNIKDMPNL  214 (452)
T ss_dssp             CTTCCEEECCSCC-CCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTT----------TCTTCCEEECTTSCCSSCCCC
T ss_pred             cCCCCEEECCCCC-cceeCHhHHhcCCcccEEeCCCCCCccccChhhcc----------CCCCCCEEECCCCcccccccc
Confidence            4667777777754 66776666777788888888877777777665443          688999999999988888888


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC-CCcCCCCccEEeecCCCCCC
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP-RALPFPHLKELHVTLCPKLK  480 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~L~~L~i~~C~~L~  480 (532)
                      ..+++|+.|+++++. +..++.            ..+..+++|+.|++.++ .+..++. ....+++|+.|+++++ +++
T Consensus       215 ~~l~~L~~L~Ls~N~-l~~~~~------------~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N-~l~  279 (452)
T 3zyi_A          215 TPLVGLEELEMSGNH-FPEIRP------------GSFHGLSSLKKLWVMNS-QVSLIERNAFDGLASLVELNLAHN-NLS  279 (452)
T ss_dssp             TTCTTCCEEECTTSC-CSEECG------------GGGTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSS-CCS
T ss_pred             cccccccEEECcCCc-CcccCc------------ccccCccCCCEEEeCCC-cCceECHHHhcCCCCCCEEECCCC-cCC
Confidence            899999999998765 555533            27888999999999986 4566644 5667899999999998 788


Q ss_pred             CCCCCCCCCCCceeEEec
Q 009534          481 KLPFDCTSGHERKLIIKG  498 (532)
Q Consensus       481 ~lp~~~~~~l~~L~~~~~  498 (532)
                      .+|......+++|+..+.
T Consensus       280 ~~~~~~~~~l~~L~~L~L  297 (452)
T 3zyi_A          280 SLPHDLFTPLRYLVELHL  297 (452)
T ss_dssp             CCCTTSSTTCTTCCEEEC
T ss_pred             ccChHHhccccCCCEEEc
Confidence            888654443455555443

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.32  E-value=1.2e-11  Score=128.37  Aligned_cols=181  Identities=19%  Similarity=0.179  Sum_probs=126.6

Q ss_pred             hhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeee
Q 009534          287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI  366 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~  366 (532)
                      ...+..+++|+.|+++  .+ .+..++.  .....+++|++|+++++. +..++...+..+++|+.|++.+|..+..++.
T Consensus       105 ~~~~~~l~~L~~L~L~--~n-~l~~~~~--~~~~~l~~L~~L~L~~N~-i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~  178 (440)
T 3zyj_A          105 IGAFNGLANLNTLELF--DN-RLTTIPN--GAFVYLSKLKELWLRNNP-IESIPSYAFNRIPSLRRLDLGELKRLSYISE  178 (440)
T ss_dssp             GGGGTTCSSCCEEECC--SS-CCSSCCT--TTSCSCSSCCEEECCSCC-CCEECTTTTTTCTTCCEEECCCCTTCCEECT
T ss_pred             hhhccCCccCCEEECC--CC-cCCeeCH--hHhhccccCceeeCCCCc-ccccCHHHhhhCcccCEeCCCCCCCcceeCc
Confidence            3455566666666643  22 1122211  112234667778777754 6677666677777888888887777777665


Q ss_pred             cccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccce
Q 009534          367 DYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLER  446 (532)
Q Consensus       367 ~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~  446 (532)
                      ....          .+++|++|++++|+++.+|.+..+++|+.|+++++. +..++.            ..+..+++|+.
T Consensus       179 ~~~~----------~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~-l~~~~~------------~~~~~l~~L~~  235 (440)
T 3zyj_A          179 GAFE----------GLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNH-LSAIRP------------GSFQGLMHLQK  235 (440)
T ss_dssp             TTTT----------TCSSCCEEECTTSCCSSCCCCTTCSSCCEEECTTSC-CCEECT------------TTTTTCTTCCE
T ss_pred             chhh----------cccccCeecCCCCcCccccccCCCcccCEEECCCCc-cCccCh------------hhhccCccCCE
Confidence            5444          689999999999998999988999999999998874 666643            37888999999


Q ss_pred             eeccccccccccCC-CCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEec
Q 009534          447 LSLGGLENLRSIYP-RALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKG  498 (532)
Q Consensus       447 L~l~~~~~L~~i~~-~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~  498 (532)
                      |++.++ .+..++. .+..+++|+.|+++++ +++.+|......+..|+.++.
T Consensus       236 L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L  286 (440)
T 3zyj_A          236 LWMIQS-QIQVIERNAFDNLQSLVEINLAHN-NLTLLPHDLFTPLHHLERIHL  286 (440)
T ss_dssp             EECTTC-CCCEECTTSSTTCTTCCEEECTTS-CCCCCCTTTTSSCTTCCEEEC
T ss_pred             EECCCC-ceeEEChhhhcCCCCCCEEECCCC-CCCccChhHhccccCCCEEEc
Confidence            999986 5666655 4567899999999997 788888654443455555543

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.27  E-value=4.8e-12  Score=139.08  Aligned_cols=107  Identities=18%  Similarity=0.204  Sum_probs=83.7

Q ss_pred             cccccHHHHHHHHHHhcc-CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCe-EEEEEeCCCCCHHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLTE-EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDF-VIWEVVSRDLQLGKIQESIAKKIG  225 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~-~~wv~v~~~~~~~~l~~~i~~~l~  225 (532)
                      ..|||++++++|.++|.. ++.++|+|+||||+||||||+.+|++. +++.+|+. ++|+++++.++...++..|+..++
T Consensus       129 ~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~  207 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY  207 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHh
Confidence            359999999999999976 568999999999999999999999876 55688986 999999999999888888887653


Q ss_pred             CCCCC----CC-----CCCHHHHHHHHHHHh---cCCcEEEe
Q 009534          226 LCNES----WD-----SKSFDEKAQEIFKTM---RNTKFLIS  255 (532)
Q Consensus       226 ~~~~~----~~-----~~~~~~~~~~l~~~L---~~kr~LlV  255 (532)
                      .....    ..     ..+.+.....+++.|   .+||+|||
T Consensus       208 ~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLV  249 (1221)
T 1vt4_I          208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV  249 (1221)
T ss_dssp             HHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEE
T ss_pred             hcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEE
Confidence            21100    00     112344566677765   78999999

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.22  E-value=3.4e-11  Score=117.23  Aligned_cols=166  Identities=19%  Similarity=0.209  Sum_probs=116.5

Q ss_pred             hhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeec
Q 009534          288 EELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEID  367 (532)
Q Consensus       288 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~  367 (532)
                      +.+..+++|+.|+++  .+. +..+.  ......+++|++|+++++..+..++...+..+++|++|++.++. +..++..
T Consensus        50 ~~~~~~~~L~~L~l~--~n~-l~~~~--~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~  123 (285)
T 1ozn_A           50 ASFRACRNLTILWLH--SNV-LARID--AAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCG-LQELGPG  123 (285)
T ss_dssp             TTTTTCTTCCEEECC--SSC-CCEEC--TTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSC-CCCCCTT
T ss_pred             HHcccCCCCCEEECC--CCc-cceeC--HhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCc-CCEECHh
Confidence            446677788888844  321 12221  11122356688888888766777765667788888888888863 4444433


Q ss_pred             ccCCccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccc
Q 009534          368 YAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLE  445 (532)
Q Consensus       368 ~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~  445 (532)
                      ...          .+++|++|++++|.++.++.  +..+++|+.|+++++. +..++.            ..+..+++|+
T Consensus       124 ~~~----------~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~------------~~~~~l~~L~  180 (285)
T 1ozn_A          124 LFR----------GLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR-ISSVPE------------RAFRGLHSLD  180 (285)
T ss_dssp             TTT----------TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCEECT------------TTTTTCTTCC
T ss_pred             Hhh----------CCcCCCEEECCCCcccccCHhHhccCCCccEEECCCCc-ccccCH------------HHhcCccccC
Confidence            333          68899999999998888764  6788999999998764 666654            2577789999


Q ss_pred             eeecccccccccc-CCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          446 RLSLGGLENLRSI-YPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       446 ~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      .|++.++. +..+ +.....+++|+.|++++| ++..+|.
T Consensus       181 ~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~  218 (285)
T 1ozn_A          181 RLLLHQNR-VAHVHPHAFRDLGRLMTLYLFAN-NLSALPT  218 (285)
T ss_dssp             EEECCSSC-CCEECTTTTTTCTTCCEEECCSS-CCSCCCH
T ss_pred             EEECCCCc-ccccCHhHccCcccccEeeCCCC-cCCcCCH
Confidence            99999875 5555 556778899999999997 5666663

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.20  E-value=1.1e-10  Score=112.62  Aligned_cols=175  Identities=18%  Similarity=0.182  Sum_probs=122.4

Q ss_pred             ccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCcc
Q 009534          294 KHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEV  373 (532)
Q Consensus       294 ~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~  373 (532)
                      ++|+.|+++  .+. +..++.  .....+++|++|+++++. +..++...+..+++|++|+++++ .+..++.....   
T Consensus        37 ~~l~~L~l~--~n~-l~~~~~--~~~~~l~~L~~L~l~~n~-l~~i~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~---  106 (270)
T 2o6q_A           37 ADTKKLDLQ--SNK-LSSLPS--KAFHRLTKLRLLYLNDNK-LQTLPAGIFKELKNLETLWVTDN-KLQALPIGVFD---  106 (270)
T ss_dssp             TTCSEEECC--SSC-CSCCCT--TSSSSCTTCCEEECCSSC-CSCCCTTTTSSCTTCCEEECCSS-CCCCCCTTTTT---
T ss_pred             CCCCEEECc--CCC-CCeeCH--HHhcCCCCCCEEECCCCc-cCeeChhhhcCCCCCCEEECCCC-cCCcCCHhHcc---
Confidence            457777744  321 222221  112235779999998854 77787766678889999999886 46656554433   


Q ss_pred             ccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccc
Q 009534          374 KRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGG  451 (532)
Q Consensus       374 ~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  451 (532)
                             .+++|++|++++|.++.++.  +..+++|++|+++++. +..++.            ..+..+++|+.|++.+
T Consensus       107 -------~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~------------~~~~~l~~L~~L~L~~  166 (270)
T 2o6q_A          107 -------QLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE-LQSLPK------------GVFDKLTSLKELRLYN  166 (270)
T ss_dssp             -------TCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT------------TTTTTCTTCCEEECCS
T ss_pred             -------cccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCCc-CCccCH------------hHccCCcccceeEecC
Confidence                   68899999999998888765  6789999999998764 666654            2467789999999988


Q ss_pred             cccccccCCC-CcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecch
Q 009534          452 LENLRSIYPR-ALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       452 ~~~L~~i~~~-~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~  500 (532)
                      + .+..++.. ...+++|+.|++++| +++.+|......+.+|+..+...
T Consensus       167 n-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~  214 (270)
T 2o6q_A          167 N-QLKRVPEGAFDKLTELKTLKLDNN-QLKRVPEGAFDSLEKLKMLQLQE  214 (270)
T ss_dssp             S-CCSCCCTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCS
T ss_pred             C-cCcEeChhHhccCCCcCEEECCCC-cCCcCCHHHhccccCCCEEEecC
Confidence            6 57777764 456899999999998 77788765433345555554433

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.20  E-value=6.6e-11  Score=114.44  Aligned_cols=126  Identities=18%  Similarity=0.182  Sum_probs=58.1

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|++|+++++. +..++  .+..+++|++|++++| .+..++.....          .+++|++|++++|+++.++.  
T Consensus        63 ~~L~~L~l~~n~-l~~~~--~l~~l~~L~~L~L~~n-~l~~~~~~~~~----------~l~~L~~L~L~~n~l~~~~~~~  128 (272)
T 3rfs_A           63 PNVRYLALGGNK-LHDIS--ALKELTNLTYLILTGN-QLQSLPNGVFD----------KLTNLKELVLVENQLQSLPDGV  128 (272)
T ss_dssp             TTCCEEECTTSC-CCCCG--GGTTCTTCCEEECTTS-CCCCCCTTTTT----------TCTTCCEEECTTSCCCCCCTTT
T ss_pred             CCCcEEECCCCC-CCCch--hhcCCCCCCEEECCCC-ccCccChhHhc----------CCcCCCEEECCCCcCCccCHHH
Confidence            445555555543 33333  2445555555555554 33333332222          34555555555554444433  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC-CcCCCCccEEeecCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR-ALPFPHLKELHVTLC  476 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C  476 (532)
                      +..+++|++|++++| .+..++.            ..+..+++|+.|+++++ ++..++.. ...+++|+.|++++|
T Consensus       129 ~~~l~~L~~L~L~~n-~l~~~~~------------~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~N  191 (272)
T 3rfs_A          129 FDKLTNLTYLNLAHN-QLQSLPK------------GVFDKLTNLTELDLSYN-QLQSLPEGVFDKLTQLKDLRLYQN  191 (272)
T ss_dssp             TTTCTTCCEEECCSS-CCCCCCT------------TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             hccCCCCCEEECCCC-ccCccCH------------HHhccCccCCEEECCCC-CcCccCHHHhcCCccCCEEECCCC
Confidence            444555555555544 2333332            12344555555555554 34444332 234455555555554

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.19  E-value=7.8e-11  Score=113.92  Aligned_cols=163  Identities=17%  Similarity=0.117  Sum_probs=124.2

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      .+..+..+++|+.|+++  .+. +..++    ....+++|++|++++|. +..++...+..+++|++|+++++ .+..++
T Consensus        55 ~~~~l~~l~~L~~L~l~--~n~-l~~~~----~l~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~  125 (272)
T 3rfs_A           55 SVQGIQYLPNVRYLALG--GNK-LHDIS----ALKELTNLTYLILTGNQ-LQSLPNGVFDKLTNLKELVLVEN-QLQSLP  125 (272)
T ss_dssp             CCTTGGGCTTCCEEECT--TSC-CCCCG----GGTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTS-CCCCCC
T ss_pred             cccccccCCCCcEEECC--CCC-CCCch----hhcCCCCCCEEECCCCc-cCccChhHhcCCcCCCEEECCCC-cCCccC
Confidence            45567788999999954  332 22221    22245789999999974 78887776788999999999997 466666


Q ss_pred             ecccCCccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccc
Q 009534          366 IDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFAR  443 (532)
Q Consensus       366 ~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~  443 (532)
                      .....          .+++|++|++++|.++.++.  +..+++|+.|++++|. +..++.            ..+..+++
T Consensus       126 ~~~~~----------~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~------------~~~~~l~~  182 (272)
T 3rfs_A          126 DGVFD----------KLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQ-LQSLPE------------GVFDKLTQ  182 (272)
T ss_dssp             TTTTT----------TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT------------TTTTTCTT
T ss_pred             HHHhc----------cCCCCCEEECCCCccCccCHHHhccCccCCEEECCCCC-cCccCH------------HHhcCCcc
Confidence            54433          68999999999998888775  6889999999999875 666654            24678999


Q ss_pred             cceeeccccccccccCCC-CcCCCCccEEeecCCCCCCC
Q 009534          444 LERLSLGGLENLRSIYPR-ALPFPHLKELHVTLCPKLKK  481 (532)
Q Consensus       444 L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~~L~~  481 (532)
                      |+.|++.++ .+..++.. ...+++|+.|++.+++-...
T Consensus       183 L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~~~~~  220 (272)
T 3rfs_A          183 LKDLRLYQN-QLKSVPDGVFDRLTSLQYIWLHDNPWDCT  220 (272)
T ss_dssp             CCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSCBCCC
T ss_pred             CCEEECCCC-cCCccCHHHHhCCcCCCEEEccCCCcccc
Confidence            999999987 46777664 56799999999999864433

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.19  E-value=5.8e-11  Score=112.40  Aligned_cols=175  Identities=14%  Similarity=0.115  Sum_probs=129.6

Q ss_pred             hhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeec
Q 009534          288 EELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEID  367 (532)
Q Consensus       288 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~  367 (532)
                      ..+..+++|+.|+++  .+..+..++..  ....+++|++|++++|+.++.++...+..+++|+.|+++++ .++.+|. 
T Consensus        49 ~~~~~l~~L~~L~l~--~n~~l~~i~~~--~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n-~l~~lp~-  122 (239)
T 2xwt_C           49 HAFSNLPNISRIYVS--IDVTLQQLESH--SFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNT-GLKMFPD-  122 (239)
T ss_dssp             TTTTTCTTCCEEEEE--CCSSCCEECTT--TEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEE-CCCSCCC-
T ss_pred             HHccCCCCCcEEeCC--CCCCcceeCHh--HcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCC-CCccccc-
Confidence            356778999999965  33223333321  12235789999999988899998777889999999999997 4665654 


Q ss_pred             ccCCccccccccCCCCCcc---EEEEeCC-ccccCCc--hhcCCCcc-eeeeccccccccccccccccCcCcccCccccc
Q 009534          368 YAGGEVKRIRETHGFFSLH---KVSIWGS-KLRHVTW--LILAPNLK-LIQMYDCRCLEEIISLEKLGEVPSEEMQNLIP  440 (532)
Q Consensus       368 ~~~~~~~~~~~~~~l~~L~---~L~l~~c-~L~~l~~--l~~l~~L~-~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~  440 (532)
                      ..           .+++|+   +|++++| .++.++.  +..+++|+ .|+++++. +..++.             ....
T Consensus       123 ~~-----------~l~~L~~L~~L~l~~N~~l~~i~~~~~~~l~~L~~~L~l~~n~-l~~i~~-------------~~~~  177 (239)
T 2xwt_C          123 LT-----------KVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYNNG-FTSVQG-------------YAFN  177 (239)
T ss_dssp             CT-----------TCCBCCSEEEEEEESCTTCCEECTTTTTTTBSSEEEEECCSCC-CCEECT-------------TTTT
T ss_pred             cc-----------cccccccccEEECCCCcchhhcCcccccchhcceeEEEcCCCC-CcccCH-------------hhcC
Confidence            22           466666   9999999 9999775  78899999 99998764 667765             3333


Q ss_pred             ccccceeeccccccccccCCC-CcCC-CCccEEeecCCCCCCCCCCCCCCCCCcee
Q 009534          441 FARLERLSLGGLENLRSIYPR-ALPF-PHLKELHVTLCPKLKKLPFDCTSGHERKL  494 (532)
Q Consensus       441 ~~~L~~L~l~~~~~L~~i~~~-~~~~-p~L~~L~i~~C~~L~~lp~~~~~~l~~L~  494 (532)
                      .++|+.|++.++++++.++.. ...+ ++|+.|+++++ +++.+|......++.|.
T Consensus       178 ~~~L~~L~L~~n~~l~~i~~~~~~~l~~~L~~L~l~~N-~l~~l~~~~~~~L~~L~  232 (239)
T 2xwt_C          178 GTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQT-SVTALPSKGLEHLKELI  232 (239)
T ss_dssp             TCEEEEEECTTCTTCCEECTTTTTTCSBCCSEEECTTC-CCCCCCCTTCTTCSEEE
T ss_pred             CCCCCEEEcCCCCCcccCCHHHhhccccCCcEEECCCC-ccccCChhHhccCceee
Confidence            389999999998889898764 4567 89999999994 67888876332234443

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.18  E-value=7.9e-11  Score=108.02  Aligned_cols=131  Identities=14%  Similarity=0.268  Sum_probs=76.3

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc--CC
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH--VT  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~--l~  399 (532)
                      +++|+.|+++++. +..+|  .+..+++|++|++++| .++.++  .          ...+++|++|++++|.+..  .+
T Consensus        43 l~~L~~L~l~~n~-i~~l~--~l~~l~~L~~L~l~~n-~~~~~~--~----------l~~l~~L~~L~l~~n~l~~~~~~  106 (197)
T 4ezg_A           43 MNSLTYITLANIN-VTDLT--GIEYAHNIKDLTINNI-HATNYN--P----------ISGLSNLERLRIMGKDVTSDKIP  106 (197)
T ss_dssp             HHTCCEEEEESSC-CSCCT--TGGGCTTCSEEEEESC-CCSCCG--G----------GTTCTTCCEEEEECTTCBGGGSC
T ss_pred             cCCccEEeccCCC-ccChH--HHhcCCCCCEEEccCC-CCCcch--h----------hhcCCCCCEEEeECCccCcccCh
Confidence            4556677776643 55555  2666667777777666 344332  1          1246677777777765554  44


Q ss_pred             chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCC
Q 009534          400 WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKL  479 (532)
Q Consensus       400 ~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L  479 (532)
                      .+..+++|++|++++|.-....+.             .+..+++|++|++++|..++.++ ....+++|+.|++++|. +
T Consensus       107 ~l~~l~~L~~L~Ls~n~i~~~~~~-------------~l~~l~~L~~L~L~~n~~i~~~~-~l~~l~~L~~L~l~~n~-i  171 (197)
T 4ezg_A          107 NLSGLTSLTLLDISHSAHDDSILT-------------KINTLPKVNSIDLSYNGAITDIM-PLKTLPELKSLNIQFDG-V  171 (197)
T ss_dssp             CCTTCTTCCEEECCSSBCBGGGHH-------------HHTTCSSCCEEECCSCTBCCCCG-GGGGCSSCCEEECTTBC-C
T ss_pred             hhcCCCCCCEEEecCCccCcHhHH-------------HHhhCCCCCEEEccCCCCccccH-hhcCCCCCCEEECCCCC-C
Confidence            466667777777766542222222             45566677777777665566665 35566677777776663 4


Q ss_pred             CCCC
Q 009534          480 KKLP  483 (532)
Q Consensus       480 ~~lp  483 (532)
                      ..+|
T Consensus       172 ~~~~  175 (197)
T 4ezg_A          172 HDYR  175 (197)
T ss_dssp             CCCT
T ss_pred             cChH
Confidence            4444

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.13  E-value=3.3e-10  Score=108.06  Aligned_cols=149  Identities=19%  Similarity=0.213  Sum_probs=101.5

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--h
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--L  401 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l  401 (532)
                      +++.|+++++. +..++...+..+++|++|+++++ .+..++.....          .+++|++|++++|+++.++.  +
T Consensus        36 ~l~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~----------~l~~L~~L~L~~n~l~~~~~~~~  103 (251)
T 3m19_A           36 DTEKLDLQSTG-LATLSDATFRGLTKLTWLNLDYN-QLQTLSAGVFD----------DLTELGTLGLANNQLASLPLGVF  103 (251)
T ss_dssp             TCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTT----------TCTTCCEEECTTSCCCCCCTTTT
T ss_pred             CCCEEEccCCC-cCccCHhHhcCcccCCEEECCCC-cCCccCHhHhc----------cCCcCCEEECCCCcccccChhHh
Confidence            48888888754 66666656777888888888875 45555444333          57888888888887777663  5


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC-CCcCCCCccEEeecCCCCCC
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP-RALPFPHLKELHVTLCPKLK  480 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~L~~L~i~~C~~L~  480 (532)
                      ..+++|++|+++++ .+..++.            ..+..+++|+.|+++++ +++.++. ....+++|+.|+++++ +++
T Consensus       104 ~~l~~L~~L~L~~N-~l~~~~~------------~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~  168 (251)
T 3m19_A          104 DHLTQLDKLYLGGN-QLKSLPS------------GVFDRLTKLKELRLNTN-QLQSIPAGAFDKLTNLQTLSLSTN-QLQ  168 (251)
T ss_dssp             TTCTTCCEEECCSS-CCCCCCT------------TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCS
T ss_pred             cccCCCCEEEcCCC-cCCCcCh------------hHhccCCcccEEECcCC-cCCccCHHHcCcCcCCCEEECCCC-cCC
Confidence            67888888888765 4666654            24566788888888876 5777766 3556788888888886 566


Q ss_pred             CCCCCCCCCCCceeEEecc
Q 009534          481 KLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       481 ~lp~~~~~~l~~L~~~~~~  499 (532)
                      .+|......+.+|+.++..
T Consensus       169 ~~~~~~~~~l~~L~~L~l~  187 (251)
T 3m19_A          169 SVPHGAFDRLGKLQTITLF  187 (251)
T ss_dssp             CCCTTTTTTCTTCCEEECC
T ss_pred             ccCHHHHhCCCCCCEEEee
Confidence            6665333333555555433

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.12  E-value=2.6e-10  Score=110.06  Aligned_cols=159  Identities=19%  Similarity=0.230  Sum_probs=121.9

Q ss_pred             hhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeec
Q 009534          288 EELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEID  367 (532)
Q Consensus       288 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~  367 (532)
                      ..+..+++|+.|+++  .+. +..++..  ....+++|++|+++++. +..++...+..+++|+.|+++++ .+..++..
T Consensus        55 ~~~~~l~~L~~L~l~--~n~-l~~i~~~--~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~  127 (270)
T 2o6q_A           55 KAFHRLTKLRLLYLN--DNK-LQTLPAG--IFKELKNLETLWVTDNK-LQALPIGVFDQLVNLAELRLDRN-QLKSLPPR  127 (270)
T ss_dssp             TSSSSCTTCCEEECC--SSC-CSCCCTT--TTSSCTTCCEEECCSSC-CCCCCTTTTTTCSSCCEEECCSS-CCCCCCTT
T ss_pred             HHhcCCCCCCEEECC--CCc-cCeeChh--hhcCCCCCCEEECCCCc-CCcCCHhHcccccCCCEEECCCC-ccCeeCHH
Confidence            456788999999954  331 2222221  12235779999999965 88888776788999999999986 56666654


Q ss_pred             ccCCccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccc
Q 009534          368 YAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLE  445 (532)
Q Consensus       368 ~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~  445 (532)
                      ...          .+++|++|++++|.++.++.  +..+++|+.|+++++. +..++.            ..+..+++|+
T Consensus       128 ~~~----------~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~------------~~~~~l~~L~  184 (270)
T 2o6q_A          128 VFD----------SLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQ-LKRVPE------------GAFDKLTELK  184 (270)
T ss_dssp             TTT----------TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCT------------TTTTTCTTCC
T ss_pred             HhC----------cCcCCCEEECCCCcCCccCHhHccCCcccceeEecCCc-CcEeCh------------hHhccCCCcC
Confidence            433          68999999999999888775  7889999999998874 666654            2577789999


Q ss_pred             eeeccccccccccCCC-CcCCCCccEEeecCCC
Q 009534          446 RLSLGGLENLRSIYPR-ALPFPHLKELHVTLCP  477 (532)
Q Consensus       446 ~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~  477 (532)
                      +|+++++ .++.++.. ...+++|+.|++.++|
T Consensus       185 ~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          185 TLKLDNN-QLKRVPEGAFDSLEKLKMLQLQENP  216 (270)
T ss_dssp             EEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             EEECCCC-cCCcCCHHHhccccCCCEEEecCCC
Confidence            9999987 67888774 4568999999999875

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.11  E-value=2.1e-10  Score=105.18  Aligned_cols=150  Identities=18%  Similarity=0.191  Sum_probs=111.0

Q ss_pred             cCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccC
Q 009534          291 LGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAG  370 (532)
Q Consensus       291 ~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~  370 (532)
                      ..+++|+.|+++-....   .++    ....+++|++|++++| .+..++.  +..+++|++|+++++. +.......  
T Consensus        41 ~~l~~L~~L~l~~n~i~---~l~----~l~~l~~L~~L~l~~n-~~~~~~~--l~~l~~L~~L~l~~n~-l~~~~~~~--  107 (197)
T 4ezg_A           41 AQMNSLTYITLANINVT---DLT----GIEYAHNIKDLTINNI-HATNYNP--ISGLSNLERLRIMGKD-VTSDKIPN--  107 (197)
T ss_dssp             HHHHTCCEEEEESSCCS---CCT----TGGGCTTCSEEEEESC-CCSCCGG--GTTCTTCCEEEEECTT-CBGGGSCC--
T ss_pred             hhcCCccEEeccCCCcc---ChH----HHhcCCCCCEEEccCC-CCCcchh--hhcCCCCCEEEeECCc-cCcccChh--
Confidence            34567888886532222   222    1234578999999998 5777653  7889999999999974 44321222  


Q ss_pred             CccccccccCCCCCccEEEEeCCcccc--CCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceee
Q 009534          371 GEVKRIRETHGFFSLHKVSIWGSKLRH--VTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLS  448 (532)
Q Consensus       371 ~~~~~~~~~~~l~~L~~L~l~~c~L~~--l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~  448 (532)
                              ...+++|++|++++|.++.  .+.+..+++|++|++++|..+..++              .+..+++|+.|+
T Consensus       108 --------l~~l~~L~~L~Ls~n~i~~~~~~~l~~l~~L~~L~L~~n~~i~~~~--------------~l~~l~~L~~L~  165 (197)
T 4ezg_A          108 --------LSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIM--------------PLKTLPELKSLN  165 (197)
T ss_dssp             --------CTTCTTCCEEECCSSBCBGGGHHHHTTCSSCCEEECCSCTBCCCCG--------------GGGGCSSCCEEE
T ss_pred             --------hcCCCCCCEEEecCCccCcHhHHHHhhCCCCCEEEccCCCCccccH--------------hhcCCCCCCEEE
Confidence                    2368999999999998876  4458899999999999987666663              467789999999


Q ss_pred             ccccccccccCCCCcCCCCccEEeecCCC
Q 009534          449 LGGLENLRSIYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       449 l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  477 (532)
                      +++| .+..++ ....+|+|+.|++++.+
T Consensus       166 l~~n-~i~~~~-~l~~l~~L~~L~l~~N~  192 (197)
T 4ezg_A          166 IQFD-GVHDYR-GIEDFPKLNQLYAFSQT  192 (197)
T ss_dssp             CTTB-CCCCCT-TGGGCSSCCEEEECBC-
T ss_pred             CCCC-CCcChH-HhccCCCCCEEEeeCcc
Confidence            9987 467776 56789999999998864

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=99.10  E-value=1.8e-10  Score=134.72  Aligned_cols=110  Identities=17%  Similarity=0.224  Sum_probs=85.5

Q ss_pred             CCcccccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCC-CeEEEEEeCCCCC--HHHHHHHH
Q 009534          146 PPTVVGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF-DFVIWEVVSRDLQ--LGKIQESI  220 (532)
Q Consensus       146 ~~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~v~~~~~--~~~l~~~i  220 (532)
                      .+.||||++++++|.++|..  ++.++|+|+||||+||||||+++|++......+| +.++||++++..+  ....+..+
T Consensus       123 ~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  202 (1249)
T 3sfz_A          123 PVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNL  202 (1249)
T ss_dssp             CSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHHHHH
T ss_pred             CceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHHHHH
Confidence            35699999999999999953  5789999999999999999999999851113445 6788999988543  44456677


Q ss_pred             HHHhcCCCC--CCCCCCHHHHHHHHHHHhcCC--cEEEe
Q 009534          221 AKKIGLCNE--SWDSKSFDEKAQEIFKTMRNT--KFLIS  255 (532)
Q Consensus       221 ~~~l~~~~~--~~~~~~~~~~~~~l~~~L~~k--r~LlV  255 (532)
                      +..+.....  .....+.+.....++..+.++  |||||
T Consensus       203 ~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~Llv  241 (1249)
T 3sfz_A          203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLI  241 (1249)
T ss_dssp             HHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEE
T ss_pred             HHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEE
Confidence            777765431  113457788899999999887  99999

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.09  E-value=3.7e-10  Score=117.08  Aligned_cols=181  Identities=20%  Similarity=0.261  Sum_probs=114.3

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      ....+..+++|+.|+++  .+. +..+..  .....+++|++|+++++ .++.++...+..+++|+.|+++++ .+..++
T Consensus        80 ~~~~~~~l~~L~~L~Ls--~n~-i~~i~~--~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N-~i~~~~  152 (440)
T 3zyj_A           80 KVNSFKHLRHLEILQLS--RNH-IRTIEI--GAFNGLANLNTLELFDN-RLTTIPNGAFVYLSKLKELWLRNN-PIESIP  152 (440)
T ss_dssp             CTTTTSSCSSCCEEECC--SSC-CCEECG--GGGTTCSSCCEEECCSS-CCSSCCTTTSCSCSSCCEEECCSC-CCCEEC
T ss_pred             CHHHhhCCCCCCEEECC--CCc-CCccCh--hhccCCccCCEEECCCC-cCCeeCHhHhhccccCceeeCCCC-cccccC
Confidence            44556677777777744  221 111110  11222466788888775 477776666777778888888775 455555


Q ss_pred             ecccCCccccccccCCCCCccEEEEeCC-ccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCccccccc
Q 009534          366 IDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFA  442 (532)
Q Consensus       366 ~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~  442 (532)
                      .....          .+++|++|++.+| .+..++.  +..+++|+.|++++|. +..++              .+..++
T Consensus       153 ~~~~~----------~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~-l~~~~--------------~~~~l~  207 (440)
T 3zyj_A          153 SYAFN----------RIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCN-LREIP--------------NLTPLI  207 (440)
T ss_dssp             TTTTT----------TCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSC-CSSCC--------------CCTTCS
T ss_pred             HHHhh----------hCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCc-Ccccc--------------ccCCCc
Confidence            54433          5778888888887 6666553  6677888888887763 55543              356678


Q ss_pred             ccceeecccccccccc-CCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecch
Q 009534          443 RLERLSLGGLENLRSI-YPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       443 ~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~  500 (532)
                      +|+.|+++++ .+..+ +..+..+++|+.|++.++ +++.++......+++|+..+...
T Consensus       208 ~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~  264 (440)
T 3zyj_A          208 KLDELDLSGN-HLSAIRPGSFQGLMHLQKLWMIQS-QIQVIERNAFDNLQSLVEINLAH  264 (440)
T ss_dssp             SCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTC-CCCEECTTSSTTCTTCCEEECTT
T ss_pred             ccCEEECCCC-ccCccChhhhccCccCCEEECCCC-ceeEEChhhhcCCCCCCEEECCC
Confidence            8888888886 56666 345667888899988886 45555443322346666665544

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.09  E-value=4.2e-10  Score=110.83  Aligned_cols=150  Identities=18%  Similarity=0.296  Sum_probs=84.7

Q ss_pred             hhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeee
Q 009534          287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI  366 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~  366 (532)
                      +..+..+++|+.|+++  .+ .+..++.    ...+++|++|+++++. +..++.  +..+++|+.|++++| .+..++.
T Consensus        56 l~~~~~l~~L~~L~L~--~n-~i~~~~~----~~~l~~L~~L~L~~n~-l~~~~~--~~~l~~L~~L~l~~n-~l~~~~~  124 (308)
T 1h6u_A           56 IEGVQYLNNLIGLELK--DN-QITDLAP----LKNLTKITELELSGNP-LKNVSA--IAGLQSIKTLDLTST-QITDVTP  124 (308)
T ss_dssp             CTTGGGCTTCCEEECC--SS-CCCCCGG----GTTCCSCCEEECCSCC-CSCCGG--GTTCTTCCEEECTTS-CCCCCGG
T ss_pred             chhhhccCCCCEEEcc--CC-cCCCChh----HccCCCCCEEEccCCc-CCCchh--hcCCCCCCEEECCCC-CCCCchh
Confidence            3456667777777743  22 1122221    2234667777777764 666552  667777777777776 3444332


Q ss_pred             cccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccce
Q 009534          367 DYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLER  446 (532)
Q Consensus       367 ~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~  446 (532)
                                  ...+++|++|++++|.++.++.+..+++|+.|++++|. +..++.              +..+++|+.
T Consensus       125 ------------l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~-l~~~~~--------------l~~l~~L~~  177 (308)
T 1h6u_A          125 ------------LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQ-VSDLTP--------------LANLSKLTT  177 (308)
T ss_dssp             ------------GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSC-CCCCGG--------------GTTCTTCCE
T ss_pred             ------------hcCCCCCCEEECCCCccCcCccccCCCCccEEEccCCc-CCCChh--------------hcCCCCCCE
Confidence                        12467777777777766666666667777777776653 333321              344555555


Q ss_pred             eeccccccccccCCCCcCCCCccEEeecCC
Q 009534          447 LSLGGLENLRSIYPRALPFPHLKELHVTLC  476 (532)
Q Consensus       447 L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C  476 (532)
                      |+++++ .+..++. ...+++|+.|++++|
T Consensus       178 L~l~~n-~l~~~~~-l~~l~~L~~L~L~~N  205 (308)
T 1h6u_A          178 LKADDN-KISDISP-LASLPNLIEVHLKNN  205 (308)
T ss_dssp             EECCSS-CCCCCGG-GGGCTTCCEEECTTS
T ss_pred             EECCCC-ccCcChh-hcCCCCCCEEEccCC
Confidence            555554 3344432 344555555555554

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.09  E-value=4.4e-10  Score=117.68  Aligned_cols=177  Identities=20%  Similarity=0.247  Sum_probs=99.8

Q ss_pred             hhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeee
Q 009534          287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI  366 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~  366 (532)
                      ...+..+++|+.|+++  .+. +..+.  +.....+++|++|+++++. +..+|...+..+++|++|+++++. +..++.
T Consensus        49 ~~~~~~l~~L~~L~L~--~n~-i~~~~--~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~-i~~~~~  121 (477)
T 2id5_A           49 QDEFASFPHLEELELN--ENI-VSAVE--PGAFNNLFNLRTLGLRSNR-LKLIPLGVFTGLSNLTKLDISENK-IVILLD  121 (477)
T ss_dssp             TTTTTTCTTCCEEECT--TSC-CCEEC--TTTTTTCTTCCEEECCSSC-CCSCCTTSSTTCTTCCEEECTTSC-CCEECT
T ss_pred             HhHccCCCCCCEEECC--CCc-cCEeC--hhhhhCCccCCEEECCCCc-CCccCcccccCCCCCCEEECCCCc-cccCCh
Confidence            3455666777777643  221 11110  1111224557777776643 566665555666666666666542 222222


Q ss_pred             cccC--------------CccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCc
Q 009534          367 DYAG--------------GEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEV  430 (532)
Q Consensus       367 ~~~~--------------~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~  430 (532)
                      ....              .....+.....+++|++|++++|+++.++.  +..+++|+.|++.++. +..++.       
T Consensus       122 ~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L~l~~n~-i~~~~~-------  193 (477)
T 2id5_A          122 YMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLN-INAIRD-------  193 (477)
T ss_dssp             TTTTTCTTCCEEEECCTTCCEECTTSSTTCTTCCEEEEESCCCSSCCHHHHTTCTTCCEEEEESCC-CCEECT-------
T ss_pred             hHccccccCCEEECCCCccceeChhhccCCCCCCEEECCCCcCcccChhHhcccCCCcEEeCCCCc-CcEeCh-------
Confidence            1111              000111122345666666666666666553  5566666666666543 333332       


Q ss_pred             CcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          431 PSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       431 ~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                           ..+..+++|+.|++.+++.+..++......++|+.|++++| +++.+|.
T Consensus       194 -----~~~~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~  241 (477)
T 2id5_A          194 -----YSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPY  241 (477)
T ss_dssp             -----TCSCSCTTCCEEEEECCTTCCEECTTTTTTCCCSEEEEESS-CCCSCCH
T ss_pred             -----hhcccCcccceeeCCCCccccccCcccccCccccEEECcCC-cccccCH
Confidence                 25667788888888888888888777777778888888887 5667773

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.06  E-value=8.1e-10  Score=115.64  Aligned_cols=148  Identities=17%  Similarity=0.148  Sum_probs=103.7

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      +++|+.|+++++. +..++...+..+++|+.|++++|..+..++.....           ..+|++|++++|+++.+|. 
T Consensus       175 l~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~-----------~~~L~~L~l~~n~l~~~~~~  242 (477)
T 2id5_A          175 LHGLIVLRLRHLN-INAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLY-----------GLNLTSLSITHCNLTAVPYL  242 (477)
T ss_dssp             CTTCCEEEEESCC-CCEECTTCSCSCTTCCEEEEECCTTCCEECTTTTT-----------TCCCSEEEEESSCCCSCCHH
T ss_pred             cCCCcEEeCCCCc-CcEeChhhcccCcccceeeCCCCccccccCccccc-----------CccccEEECcCCcccccCHH
Confidence            3556667766643 55555555666777777777777666666554433           4589999999998888884 


Q ss_pred             -hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc-CCCCcCCCCccEEeecCCCC
Q 009534          401 -LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-YPRALPFPHLKELHVTLCPK  478 (532)
Q Consensus       401 -l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~~  478 (532)
                       +..+++|+.|+++++. +..++.            ..+..+++|+.|++.++ ++..+ +.....+++|+.|++++| +
T Consensus       243 ~~~~l~~L~~L~Ls~n~-l~~~~~------------~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~N-~  307 (477)
T 2id5_A          243 AVRHLVYLRFLNLSYNP-ISTIEG------------SMLHELLRLQEIQLVGG-QLAVVEPYAFRGLNYLRVLNVSGN-Q  307 (477)
T ss_dssp             HHTTCTTCCEEECCSSC-CCEECT------------TSCTTCTTCCEEECCSS-CCSEECTTTBTTCTTCCEEECCSS-C
T ss_pred             HhcCccccCeeECCCCc-CCccCh------------hhccccccCCEEECCCC-ccceECHHHhcCcccCCEEECCCC-c
Confidence             7889999999998775 555544            36778899999999986 45555 445667899999999997 6


Q ss_pred             CCCCCCCCCCCCCceeEE
Q 009534          479 LKKLPFDCTSGHERKLII  496 (532)
Q Consensus       479 L~~lp~~~~~~l~~L~~~  496 (532)
                      ++.+|......+.+|+.+
T Consensus       308 l~~~~~~~~~~l~~L~~L  325 (477)
T 2id5_A          308 LTTLEESVFHSVGNLETL  325 (477)
T ss_dssp             CSCCCGGGBSCGGGCCEE
T ss_pred             CceeCHhHcCCCcccCEE
Confidence            777776432222444443

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.06  E-value=4.9e-10  Score=109.34  Aligned_cols=144  Identities=19%  Similarity=0.190  Sum_probs=103.2

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      +++|+.|+++++. +..++.  ...+++|+.|+++++ .+..+|....           .+++|++|++++|+++.++. 
T Consensus        54 l~~L~~L~L~~n~-l~~~~~--~~~l~~L~~L~Ls~N-~l~~l~~~~~-----------~l~~L~~L~l~~N~l~~l~~~  118 (290)
T 1p9a_G           54 YTRLTQLNLDRAE-LTKLQV--DGTLPVLGTLDLSHN-QLQSLPLLGQ-----------TLPALTVLDVSFNRLTSLPLG  118 (290)
T ss_dssp             CTTCCEEECTTSC-CCEEEC--CSCCTTCCEEECCSS-CCSSCCCCTT-----------TCTTCCEEECCSSCCCCCCSS
T ss_pred             CCCCCEEECCCCc-cCcccC--CCCCCcCCEEECCCC-cCCcCchhhc-----------cCCCCCEEECCCCcCcccCHH
Confidence            5668888888854 777765  367788888888876 5565655332           48888888888888888764 


Q ss_pred             -hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCC-cCCCCccEEeecCCCC
Q 009534          401 -LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRA-LPFPHLKELHVTLCPK  478 (532)
Q Consensus       401 -l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C~~  478 (532)
                       +..+++|+.|+++++. +..++.            ..+..+++|+.|+++++ +++.+|... ..+++|+.|+++++ +
T Consensus       119 ~~~~l~~L~~L~L~~N~-l~~~~~------------~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~L~~N-~  183 (290)
T 1p9a_G          119 ALRGLGELQELYLKGNE-LKTLPP------------GLLTPTPKLEKLSLANN-NLTELPAGLLNGLENLDTLLLQEN-S  183 (290)
T ss_dssp             TTTTCTTCCEEECTTSC-CCCCCT------------TTTTTCTTCCEEECTTS-CCSCCCTTTTTTCTTCCEEECCSS-C
T ss_pred             HHcCCCCCCEEECCCCC-CCccCh------------hhcccccCCCEEECCCC-cCCccCHHHhcCcCCCCEEECCCC-c
Confidence             6778888888887764 566654            24567888888888875 577787754 45888888888876 5


Q ss_pred             CCCCCCCCCCCCCceeEE
Q 009534          479 LKKLPFDCTSGHERKLII  496 (532)
Q Consensus       479 L~~lp~~~~~~l~~L~~~  496 (532)
                      ++.+|.+.... ..|+.+
T Consensus       184 l~~ip~~~~~~-~~L~~l  200 (290)
T 1p9a_G          184 LYTIPKGFFGS-HLLPFA  200 (290)
T ss_dssp             CCCCCTTTTTT-CCCSEE
T ss_pred             CCccChhhccc-ccCCeE
Confidence            77888765544 344443

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.06  E-value=6.2e-10  Score=99.09  Aligned_cols=134  Identities=19%  Similarity=0.194  Sum_probs=105.2

Q ss_pred             cCCCeEEEecCCCCC--ccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc-CC
Q 009534          323 SNTPSLSLTNCRSLS--SLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH-VT  399 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~--~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~-l~  399 (532)
                      ++|+.|++++|. +.  .+|.. +..+++|+.|++.+|. +..+  ...          ..+++|++|++++|.+.. +|
T Consensus        24 ~~L~~L~l~~n~-l~~~~i~~~-~~~l~~L~~L~l~~n~-l~~~--~~~----------~~l~~L~~L~Ls~N~l~~~~~   88 (168)
T 2ell_A           24 AAVRELVLDNCK-SNDGKIEGL-TAEFVNLEFLSLINVG-LISV--SNL----------PKLPKLKKLELSENRIFGGLD   88 (168)
T ss_dssp             TSCSEEECCSCB-CBTTBCSSC-CGGGGGCCEEEEESSC-CCCC--SSC----------CCCSSCCEEEEESCCCCSCCC
T ss_pred             ccCCEEECCCCC-CChhhHHHH-HHhCCCCCEEeCcCCC-CCCh--hhh----------ccCCCCCEEECcCCcCchHHH
Confidence            559999999976 65  77754 7889999999999985 6655  222          368999999999998887 66


Q ss_pred             c-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC----CCcCCCCccEEeec
Q 009534          400 W-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP----RALPFPHLKELHVT  474 (532)
Q Consensus       400 ~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~----~~~~~p~L~~L~i~  474 (532)
                      . +..+++|+.|++++| .+..++.           ...+..+++|+.|+++++ .+..++.    ....+|+|+.|++.
T Consensus        89 ~~~~~l~~L~~L~Ls~N-~l~~~~~-----------~~~l~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~  155 (168)
T 2ell_A           89 MLAEKLPNLTHLNLSGN-KLKDIST-----------LEPLKKLECLKSLDLFNC-EVTNLNDYRESVFKLLPQLTYLDGY  155 (168)
T ss_dssp             HHHHHCTTCCEEECBSS-SCCSSGG-----------GGGGSSCSCCCEEECCSS-GGGTSTTHHHHHHTTCSSCCEETTE
T ss_pred             HHHhhCCCCCEEeccCC-ccCcchh-----------HHHHhcCCCCCEEEeeCC-cCcchHHHHHHHHHhCccCcEecCC
Confidence            6 445999999999887 4666642           126778999999999997 4667765    56679999999999


Q ss_pred             CCCCCCCCCCC
Q 009534          475 LCPKLKKLPFD  485 (532)
Q Consensus       475 ~C~~L~~lp~~  485 (532)
                      +|+ +.++|..
T Consensus       156 ~n~-~~~~~~~  165 (168)
T 2ell_A          156 DRE-DQEAPDS  165 (168)
T ss_dssp             ETT-SCBCCSS
T ss_pred             CCC-hhhcccc
Confidence            984 5666654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.06  E-value=2.7e-10  Score=122.77  Aligned_cols=107  Identities=16%  Similarity=0.223  Sum_probs=80.2

Q ss_pred             CcccccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhccCC-CCCC-CeEEEEEeCCCCCHHHHHHHH--
Q 009534          147 PTVVGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSFLHT-PNNF-DFVIWEVVSRDLQLGKIQESI--  220 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~-~~~F-~~~~wv~v~~~~~~~~l~~~i--  220 (532)
                      +.||||+.+++.+.++|..  ++.++++|+||||+||||||+.+|++. .+ ..+| +.++|++++.. +...+...+  
T Consensus       124 ~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~-~~~~~~~~l~~  201 (591)
T 1z6t_A          124 VVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQN  201 (591)
T ss_dssp             SSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESC-CHHHHHHHHHH
T ss_pred             CeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCC-chHHHHHHHHH
Confidence            5799999999999999974  468999999999999999999999875 33 4678 58999999775 333444443  


Q ss_pred             -HHHhcCCC--CCCCCCCHHHHHHHHHHHhcC--CcEEEe
Q 009534          221 -AKKIGLCN--ESWDSKSFDEKAQEIFKTMRN--TKFLIS  255 (532)
Q Consensus       221 -~~~l~~~~--~~~~~~~~~~~~~~l~~~L~~--kr~LlV  255 (532)
                       ...++...  ......+.+.....+++.+.+  +++|||
T Consensus       202 l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLV  241 (591)
T 1z6t_A          202 LCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLI  241 (591)
T ss_dssp             HHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEE
T ss_pred             HHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEE
Confidence             34444211  112445677788888888876  688888

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.05  E-value=7.1e-10  Score=115.36  Aligned_cols=181  Identities=19%  Similarity=0.209  Sum_probs=115.1

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      ..+.+..+++|+.|+++  .+ .+..+..  .....+++|++|+|+++. +..++...+..+++|++|+++++ .++.++
T Consensus        91 ~~~~~~~l~~L~~L~Ls--~n-~i~~~~~--~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~  163 (452)
T 3zyi_A           91 QADTFRHLHHLEVLQLG--RN-SIRQIEV--GAFNGLASLNTLELFDNW-LTVIPSGAFEYLSKLRELWLRNN-PIESIP  163 (452)
T ss_dssp             CTTTTTTCTTCCEEECC--SS-CCCEECT--TTTTTCTTCCEEECCSSC-CSBCCTTTSSSCTTCCEEECCSC-CCCEEC
T ss_pred             CHHHcCCCCCCCEEECC--CC-ccCCcCh--hhccCcccCCEEECCCCc-CCccChhhhcccCCCCEEECCCC-CcceeC
Confidence            34556677777777744  22 1111111  112234668888888754 77777666777788888888776 456565


Q ss_pred             ecccCCccccccccCCCCCccEEEEeCC-ccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCccccccc
Q 009534          366 IDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFA  442 (532)
Q Consensus       366 ~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~  442 (532)
                      .....          .+++|++|++++| .+..++.  +..+++|+.|++++|. +..++              .+..++
T Consensus       164 ~~~~~----------~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~-l~~~~--------------~~~~l~  218 (452)
T 3zyi_A          164 SYAFN----------RVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCN-IKDMP--------------NLTPLV  218 (452)
T ss_dssp             TTTTT----------TCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTTSC-CSSCC--------------CCTTCT
T ss_pred             HhHHh----------cCCcccEEeCCCCCCccccChhhccCCCCCCEEECCCCc-ccccc--------------cccccc
Confidence            54433          5788888888887 7777654  6678888888887664 44442              466688


Q ss_pred             ccceeecccccccccc-CCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecch
Q 009534          443 RLERLSLGGLENLRSI-YPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       443 ~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~  500 (532)
                      +|+.|+++++. +..+ +..+..+++|+.|++.+|. +..++......+.+|+..+...
T Consensus       219 ~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~  275 (452)
T 3zyi_A          219 GLEELEMSGNH-FPEIRPGSFHGLSSLKKLWVMNSQ-VSLIERNAFDGLASLVELNLAH  275 (452)
T ss_dssp             TCCEEECTTSC-CSEECGGGGTTCTTCCEEECTTSC-CCEECTTTTTTCTTCCEEECCS
T ss_pred             cccEEECcCCc-CcccCcccccCccCCCEEEeCCCc-CceECHHHhcCCCCCCEEECCC
Confidence            89999998864 5555 4456678899999998874 4444332222235555555443

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.05  E-value=7.3e-10  Score=107.17  Aligned_cols=149  Identities=19%  Similarity=0.199  Sum_probs=91.2

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc--CC
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH--VT  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~--l~  399 (532)
                      +++|++|+++++. +..++...+..+++|+.|++.++ .+..++...          ...+++|++|++++|.+..  +|
T Consensus        75 l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~----------~~~l~~L~~L~l~~n~l~~~~l~  142 (276)
T 2z62_A           75 LSHLSTLILTGNP-IQSLALGAFSGLSSLQKLVAVET-NLASLENFP----------IGHLKTLKELNVAHNLIQSFKLP  142 (276)
T ss_dssp             CTTCCEEECTTCC-CCEECTTTTTTCTTCCEEECTTS-CCCCSTTCC----------CTTCTTCCEEECCSSCCCCCCCC
T ss_pred             CcCCCEEECCCCc-cCccChhhhcCCccccEEECCCC-CccccCchh----------cccCCCCCEEECcCCccceecCc
Confidence            3456666666643 55555444556666666666654 233332211          2357788888888886665  34


Q ss_pred             -chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccc----eeeccccccccccCCCCcCCCCccEEeec
Q 009534          400 -WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLE----RLSLGGLENLRSIYPRALPFPHLKELHVT  474 (532)
Q Consensus       400 -~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~----~L~l~~~~~L~~i~~~~~~~p~L~~L~i~  474 (532)
                       .+..+++|++|+++++. +..++.            ..+..+++|+    .|+++++ .+..++......++|+.|+++
T Consensus       143 ~~~~~l~~L~~L~Ls~N~-l~~~~~------------~~~~~l~~L~~l~l~L~ls~n-~l~~~~~~~~~~~~L~~L~L~  208 (276)
T 2z62_A          143 EYFSNLTNLEHLDLSSNK-IQSIYC------------TDLRVLHQMPLLNLSLDLSLN-PMNFIQPGAFKEIRLKELALD  208 (276)
T ss_dssp             GGGGGCTTCCEEECCSSC-CCEECG------------GGGHHHHTCTTCCEEEECCSS-CCCEECTTSSCSCCEEEEECC
T ss_pred             hhhccCCCCCEEECCCCC-CCcCCH------------HHhhhhhhccccceeeecCCC-cccccCccccCCCcccEEECC
Confidence             36777888888887764 454433            1444555565    6677764 466777666667789999999


Q ss_pred             CCCCCCCCCCCCCCCCCceeEEe
Q 009534          475 LCPKLKKLPFDCTSGHERKLIIK  497 (532)
Q Consensus       475 ~C~~L~~lp~~~~~~l~~L~~~~  497 (532)
                      +|. ++.+|......+.+|+..+
T Consensus       209 ~n~-l~~~~~~~~~~l~~L~~L~  230 (276)
T 2z62_A          209 TNQ-LKSVPDGIFDRLTSLQKIW  230 (276)
T ss_dssp             SSC-CSCCCTTTTTTCCSCCEEE
T ss_pred             CCc-eeecCHhHhcccccccEEE
Confidence            875 7888765433335555443

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.04  E-value=1e-09  Score=106.63  Aligned_cols=164  Identities=16%  Similarity=0.141  Sum_probs=117.4

Q ss_pred             CccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCc
Q 009534          293 LKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGE  372 (532)
Q Consensus       293 L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~  372 (532)
                      .++|+.|+++  .+. +..++.  .....+++|++|+++++ .+..++...+..+++|++|+++++..+..++.....  
T Consensus        31 ~~~l~~L~l~--~n~-i~~~~~--~~~~~~~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~--  102 (285)
T 1ozn_A           31 PAASQRIFLH--GNR-ISHVPA--ASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFH--  102 (285)
T ss_dssp             CTTCSEEECT--TSC-CCEECT--TTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTT--
T ss_pred             CCCceEEEee--CCc-CCccCH--HHcccCCCCCEEECCCC-ccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhc--
Confidence            3578888743  321 222221  11223577999999986 477776566888999999999988667766554433  


Q ss_pred             cccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecc
Q 009534          373 VKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLG  450 (532)
Q Consensus       373 ~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  450 (532)
                              .+++|++|++++|.+..++.  +..+++|++|+++++. +..++.            ..+..+++|++|+++
T Consensus       103 --------~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~------------~~~~~l~~L~~L~l~  161 (285)
T 1ozn_A          103 --------GLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPD------------DTFRDLGNLTHLFLH  161 (285)
T ss_dssp             --------TCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCT------------TTTTTCTTCCEEECC
T ss_pred             --------CCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCc-ccccCH------------hHhccCCCccEEECC
Confidence                    68999999999998888644  7789999999998764 555544            257789999999999


Q ss_pred             ccccccccCCC-CcCCCCccEEeecCCCCCCCCCCCC
Q 009534          451 GLENLRSIYPR-ALPFPHLKELHVTLCPKLKKLPFDC  486 (532)
Q Consensus       451 ~~~~L~~i~~~-~~~~p~L~~L~i~~C~~L~~lp~~~  486 (532)
                      ++ .++.++.. ...+++|+.|++++|.--...|...
T Consensus       162 ~n-~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~  197 (285)
T 1ozn_A          162 GN-RISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAF  197 (285)
T ss_dssp             SS-CCCEECTTTTTTCTTCCEEECCSSCCCEECTTTT
T ss_pred             CC-cccccCHHHhcCccccCEEECCCCcccccCHhHc
Confidence            86 67788764 6679999999999975333334433

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.04  E-value=2.2e-09  Score=104.69  Aligned_cols=174  Identities=22%  Similarity=0.263  Sum_probs=132.7

Q ss_pred             hhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecc
Q 009534          289 ELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       289 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      ++.++++++.++++  .. .+..++...     .++++.|+++++. +..++...+..+++|+.|+++++ .+..++.. 
T Consensus         5 ~~~~l~~l~~l~~~--~~-~l~~ip~~~-----~~~l~~L~L~~N~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~-   73 (290)
T 1p9a_G            5 EVSKVASHLEVNCD--KR-NLTALPPDL-----PKDTTILHLSENL-LYTFSLATLMPYTRLTQLNLDRA-ELTKLQVD-   73 (290)
T ss_dssp             EEECSTTCCEEECT--TS-CCSSCCSCC-----CTTCCEEECTTSC-CSEEEGGGGTTCTTCCEEECTTS-CCCEEECC-
T ss_pred             cccccCCccEEECC--CC-CCCcCCCCC-----CCCCCEEEcCCCc-CCccCHHHhhcCCCCCEEECCCC-ccCcccCC-
Confidence            45677888888843  22 233343321     2459999999965 78887677899999999999996 57766653 


Q ss_pred             cCCccccccccCCCCCccEEEEeCCccccCCc-hhcCCCcceeeeccccccccccccccccCcCcccCccccccccccee
Q 009534          369 AGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERL  447 (532)
Q Consensus       369 ~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L  447 (532)
                       .          .+++|++|++++|.++.+|. +..+++|+.|+++++. +..++.            ..+..+++|++|
T Consensus        74 -~----------~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~-l~~l~~------------~~~~~l~~L~~L  129 (290)
T 1p9a_G           74 -G----------TLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPL------------GALRGLGELQEL  129 (290)
T ss_dssp             -S----------CCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSC-CCCCCS------------STTTTCTTCCEE
T ss_pred             -C----------CCCcCCEEECCCCcCCcCchhhccCCCCCEEECCCCc-CcccCH------------HHHcCCCCCCEE
Confidence             2          58999999999999888876 6789999999998764 666654            367889999999


Q ss_pred             eccccccccccCCCC-cCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecc
Q 009534          448 SLGGLENLRSIYPRA-LPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       448 ~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      +++++ .++.++... ..+++|+.|+++++ +++.+|.+....+..|+..+..
T Consensus       130 ~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~L~~L~L~  180 (290)
T 1p9a_G          130 YLKGN-ELKTLPPGLLTPTPKLEKLSLANN-NLTELPAGLLNGLENLDTLLLQ  180 (290)
T ss_dssp             ECTTS-CCCCCCTTTTTTCTTCCEEECTTS-CCSCCCTTTTTTCTTCCEEECC
T ss_pred             ECCCC-CCCccChhhcccccCCCEEECCCC-cCCccCHHHhcCcCCCCEEECC
Confidence            99986 677887754 57899999999987 6888987654444666666554

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.04  E-value=1.3e-09  Score=118.25  Aligned_cols=180  Identities=13%  Similarity=0.138  Sum_probs=94.5

Q ss_pred             chhhhcCCccCceeeEEeccchhH---------------HHhhcCCcccccccCCCeEEEecCCCCCccccccccccccc
Q 009534          286 LVEELLGLKHLNVLTITLHSFAAL---------------QRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHL  350 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l---------------~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L  350 (532)
                      +...+..+++|++|+++-......               ..++..... ..+++|++|++++|.-...+|.. +.++++|
T Consensus       198 ip~~l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~-~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L  275 (636)
T 4eco_A          198 VSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKW-DNLKDLTDVEVYNCPNLTKLPTF-LKALPEM  275 (636)
T ss_dssp             ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCG-GGCTTCCEEEEECCTTCSSCCTT-TTTCSSC
T ss_pred             CCHHHhcccCCCEEECcCCccccccccccccccccchhcccCchhhhh-cccCCCCEEEecCCcCCccChHH-HhcCCCC
Confidence            345677888899988653332220               003333220 14567999999988767777744 7888888


Q ss_pred             cceeeccccCcce--eeecccC-------------------Ccccccc--ccCCCCCccEEEEeCCccc-cCCchhcCCC
Q 009534          351 EALDMRYCKDLEE--MEIDYAG-------------------GEVKRIR--ETHGFFSLHKVSIWGSKLR-HVTWLILAPN  406 (532)
Q Consensus       351 ~~L~i~~c~~L~~--l~~~~~~-------------------~~~~~~~--~~~~l~~L~~L~l~~c~L~-~l~~l~~l~~  406 (532)
                      +.|+++++..+..  +|.....                   .+ ..+.  ....+++|++|++++|.+. .+|.+..+++
T Consensus       276 ~~L~Ls~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l~-~ip~~~~l~~l~~L~~L~L~~N~l~g~ip~~~~l~~  354 (636)
T 4eco_A          276 QLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLK-TFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIK  354 (636)
T ss_dssp             CEEECTTCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCCS-SCCCHHHHTTCTTCCEEECCSCCCEEECCCCEEEEE
T ss_pred             CEEECcCCCCCccccchHHHHhhhccccCCCCCEEECCCCcCC-ccCchhhhccCCCCCEEeCcCCcCccchhhhCCCCC
Confidence            8888888753442  4432211                   00 1111  1233444444544444444 3444444444


Q ss_pred             cceeeeccccccccccccccccCcCcccCcccccccc-cceeeccccccccccCCCCcC--CCCccEEeecCCCCCCCCC
Q 009534          407 LKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFAR-LERLSLGGLENLRSIYPRALP--FPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       407 L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~-L~~L~l~~~~~L~~i~~~~~~--~p~L~~L~i~~C~~L~~lp  483 (532)
                      |+.|+++++. +..++.             .+..+++ |++|+++++. +..+|.....  +++|+.|++++|.--..+|
T Consensus       355 L~~L~L~~N~-l~~lp~-------------~l~~l~~~L~~L~Ls~N~-l~~lp~~~~~~~l~~L~~L~Ls~N~l~~~~p  419 (636)
T 4eco_A          355 LASLNLAYNQ-ITEIPA-------------NFCGFTEQVENLSFAHNK-LKYIPNIFDAKSVSVMSAIDFSYNEIGSVDG  419 (636)
T ss_dssp             ESEEECCSSE-EEECCT-------------TSEEECTTCCEEECCSSC-CSSCCSCCCTTCSSCEEEEECCSSCTTTTTT
T ss_pred             CCEEECCCCc-cccccH-------------hhhhhcccCcEEEccCCc-CcccchhhhhcccCccCEEECcCCcCCCcch
Confidence            4444444432 233333             4555666 6666666643 4455543333  2356666666654444444

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.04  E-value=2.9e-10  Score=112.42  Aligned_cols=100  Identities=12%  Similarity=0.066  Sum_probs=54.9

Q ss_pred             CCCCccEEEEeCCccccCCc--h-hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccc
Q 009534          381 GFFSLHKVSIWGSKLRHVTW--L-ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRS  457 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~l~~--l-~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~  457 (532)
                      .+++|++|++++|.+..++.  + ..+++|++|++++|. +..++.              ...+++|++|+++++ .++.
T Consensus       142 ~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~--------------~~~l~~L~~L~Ls~N-~l~~  205 (317)
T 3o53_A          142 CRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF-IYDVKG--------------QVVFAKLKTLDLSSN-KLAF  205 (317)
T ss_dssp             GGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSC-CCEEEC--------------CCCCTTCCEEECCSS-CCCE
T ss_pred             ccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCCc-Cccccc--------------ccccccCCEEECCCC-cCCc
Confidence            46666666666665555321  2 345666666666554 444422              223566666666664 4555


Q ss_pred             cCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEec
Q 009534          458 IYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKG  498 (532)
Q Consensus       458 i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~  498 (532)
                      ++.....+++|+.|++++| +++.+|...... +.|+..+.
T Consensus       206 l~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~l-~~L~~L~l  244 (317)
T 3o53_A          206 MGPEFQSAAGVTWISLRNN-KLVLIEKALRFS-QNLEHFDL  244 (317)
T ss_dssp             ECGGGGGGTTCSEEECTTS-CCCEECTTCCCC-TTCCEEEC
T ss_pred             chhhhcccCcccEEECcCC-cccchhhHhhcC-CCCCEEEc
Confidence            5555555666666666665 455566543332 44444433

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.03  E-value=4.8e-10  Score=109.50  Aligned_cols=123  Identities=18%  Similarity=0.250  Sum_probs=66.0

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL  401 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l  401 (532)
                      +++|+.|+++++. +..++.  +..+++|+.|++++| .+..++  .          ...+++|++|++++|+++.++.+
T Consensus        89 l~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~L~~n-~i~~~~--~----------l~~l~~L~~L~l~~n~l~~~~~l  152 (291)
T 1h6t_A           89 LKNLGWLFLDENK-VKDLSS--LKDLKKLKSLSLEHN-GISDIN--G----------LVHLPQLESLYLGNNKITDITVL  152 (291)
T ss_dssp             CTTCCEEECCSSC-CCCGGG--GTTCTTCCEEECTTS-CCCCCG--G----------GGGCTTCCEEECCSSCCCCCGGG
T ss_pred             CCCCCEEECCCCc-CCCChh--hccCCCCCEEECCCC-cCCCCh--h----------hcCCCCCCEEEccCCcCCcchhh
Confidence            3445555555543 444432  455555555555554 233321  1          12456666666666655555556


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCC
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  477 (532)
                      ..+++|+.|++++|. +..++              .+..+++|+.|+++++ .++.++. ...+++|+.|++++++
T Consensus       153 ~~l~~L~~L~L~~N~-l~~~~--------------~l~~l~~L~~L~L~~N-~i~~l~~-l~~l~~L~~L~l~~n~  211 (291)
T 1h6t_A          153 SRLTKLDTLSLEDNQ-ISDIV--------------PLAGLTKLQNLYLSKN-HISDLRA-LAGLKNLDVLELFSQE  211 (291)
T ss_dssp             GGCTTCSEEECCSSC-CCCCG--------------GGTTCTTCCEEECCSS-CCCBCGG-GTTCTTCSEEEEEEEE
T ss_pred             ccCCCCCEEEccCCc-cccch--------------hhcCCCccCEEECCCC-cCCCChh-hccCCCCCEEECcCCc
Confidence            666666666665543 33332              1444666666666665 4555543 4556666666666653

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.03  E-value=4.5e-10  Score=112.39  Aligned_cols=129  Identities=12%  Similarity=0.155  Sum_probs=89.1

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL  401 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l  401 (532)
                      +++|+.|+++++. +..++.  +..+++|+.|++++| .+..++.            ...+++|++|++++|.+..++.+
T Consensus       198 l~~L~~L~l~~n~-l~~~~~--~~~~~~L~~L~l~~n-~l~~~~~------------~~~l~~L~~L~l~~n~l~~~~~~  261 (347)
T 4fmz_A          198 LTSLHYFTAYVNQ-ITDITP--VANMTRLNSLKIGNN-KITDLSP------------LANLSQLTWLEIGTNQISDINAV  261 (347)
T ss_dssp             CTTCCEEECCSSC-CCCCGG--GGGCTTCCEEECCSS-CCCCCGG------------GTTCTTCCEEECCSSCCCCCGGG
T ss_pred             CCccceeecccCC-CCCCch--hhcCCcCCEEEccCC-ccCCCcc------------hhcCCCCCEEECCCCccCCChhH
Confidence            3556666666643 444433  556677777777776 3443333            23688999999999988888878


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCC
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKK  481 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~  481 (532)
                      ..+++|+.|++++|. +..+ .             .+..+++|+.|++++|+--...+.....+++|+.|++++|+ +..
T Consensus       262 ~~l~~L~~L~l~~n~-l~~~-~-------------~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~L~~n~-l~~  325 (347)
T 4fmz_A          262 KDLTKLKMLNVGSNQ-ISDI-S-------------VLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNH-ITD  325 (347)
T ss_dssp             TTCTTCCEEECCSSC-CCCC-G-------------GGGGCTTCSEEECCSSCCCGGGHHHHHTCTTCSEEECCSSS-CCC
T ss_pred             hcCCCcCEEEccCCc-cCCC-h-------------hhcCCCCCCEEECcCCcCCCcChhHhhccccCCEEEccCCc-ccc
Confidence            889999999998874 5554 2             46678899999999875332333345678899999999987 444


Q ss_pred             C
Q 009534          482 L  482 (532)
Q Consensus       482 l  482 (532)
                      +
T Consensus       326 ~  326 (347)
T 4fmz_A          326 I  326 (347)
T ss_dssp             C
T ss_pred             c
Confidence            4

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.02  E-value=2.6e-09  Score=119.06  Aligned_cols=124  Identities=15%  Similarity=0.171  Sum_probs=73.1

Q ss_pred             chhhhcCCccCceeeEEeccchhH---------------HHhhcCCcccccccCCCeEEEecCCCCCccccccccccccc
Q 009534          286 LVEELLGLKHLNVLTITLHSFAAL---------------QRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHL  350 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l---------------~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L  350 (532)
                      +...+..+++|+.|+++-......               ..++.... ...+++|+.|++++|.....+|.. +.++++|
T Consensus       440 IP~~l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~-f~~L~~L~~L~Ls~N~l~~~iP~~-l~~L~~L  517 (876)
T 4ecn_A          440 ISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELS-WSNLKDLTDVELYNCPNMTQLPDF-LYDLPEL  517 (876)
T ss_dssp             ECGGGGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCC-GGGCTTCCEEEEESCTTCCSCCGG-GGGCSSC
T ss_pred             hhHHHhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhh-hccCCCCCEEECcCCCCCccChHH-HhCCCCC
Confidence            445688899999999663333220               01333322 114577999999998877888854 8899999


Q ss_pred             cceeeccccCcce--eeecccCCccccccccCCCCCccEEEEeCCccccCCc---hhcCCCcceeeeccc
Q 009534          351 EALDMRYCKDLEE--MEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW---LILAPNLKLIQMYDC  415 (532)
Q Consensus       351 ~~L~i~~c~~L~~--l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~---l~~l~~L~~L~l~~c  415 (532)
                      +.|+++++..+..  +|..+...    ......+++|++|++++|++..+|.   ++.+++|+.|+++++
T Consensus       518 ~~L~Ls~N~~lsg~~iP~~i~~L----~~~~~~l~~L~~L~Ls~N~L~~ip~~~~l~~L~~L~~L~Ls~N  583 (876)
T 4ecn_A          518 QSLNIACNRGISAAQLKADWTRL----ADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHN  583 (876)
T ss_dssp             CEEECTTCTTSCHHHHHHHHHHH----HHCTTTTTTCCEEECCSSCCCBCCCHHHHTTCTTCCEEECTTS
T ss_pred             CEEECcCCCCcccccchHHHHhh----hhcccccCCccEEEeeCCcCCccCChhhhhcCCCCCEEECCCC
Confidence            9999998753442  44322110    0011234455566665555555553   455555555555544

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.01  E-value=7.8e-10  Score=107.97  Aligned_cols=153  Identities=17%  Similarity=0.270  Sum_probs=116.2

Q ss_pred             cCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccC
Q 009534          291 LGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAG  370 (532)
Q Consensus       291 ~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~  370 (532)
                      ..+++|+.|+++  .+ .+..++.    ...+++|+.|+++++. +..++.  +..+++|+.|+++++ .+..++.    
T Consensus        43 ~~l~~L~~L~l~--~~-~i~~~~~----~~~l~~L~~L~L~~n~-l~~~~~--l~~l~~L~~L~l~~n-~l~~~~~----  107 (291)
T 1h6t_A           43 NELNSIDQIIAN--NS-DIKSVQG----IQYLPNVTKLFLNGNK-LTDIKP--LANLKNLGWLFLDEN-KVKDLSS----  107 (291)
T ss_dssp             HHHHTCCEEECT--TS-CCCCCTT----GGGCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSS-CCCCGGG----
T ss_pred             hhcCcccEEEcc--CC-CcccChh----HhcCCCCCEEEccCCc-cCCCcc--cccCCCCCEEECCCC-cCCCChh----
Confidence            346677788743  33 1222221    2235789999999975 777765  788999999999987 4554432    


Q ss_pred             CccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecc
Q 009534          371 GEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLG  450 (532)
Q Consensus       371 ~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  450 (532)
                              ...+++|++|++++|.+..++.+..+++|+.|++++|. +..+ .             .+..+++|+.|+++
T Consensus       108 --------l~~l~~L~~L~L~~n~i~~~~~l~~l~~L~~L~l~~n~-l~~~-~-------------~l~~l~~L~~L~L~  164 (291)
T 1h6t_A          108 --------LKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNK-ITDI-T-------------VLSRLTKLDTLSLE  164 (291)
T ss_dssp             --------GTTCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSC-CCCC-G-------------GGGGCTTCSEEECC
T ss_pred             --------hccCCCCCEEECCCCcCCCChhhcCCCCCCEEEccCCc-CCcc-h-------------hhccCCCCCEEEcc
Confidence                    23689999999999999998889999999999998874 5555 3             57779999999999


Q ss_pred             ccccccccCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          451 GLENLRSIYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       451 ~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      ++ .+..++. ...+++|+.|++++| .+..+|.
T Consensus       165 ~N-~l~~~~~-l~~l~~L~~L~L~~N-~i~~l~~  195 (291)
T 1h6t_A          165 DN-QISDIVP-LAGLTKLQNLYLSKN-HISDLRA  195 (291)
T ss_dssp             SS-CCCCCGG-GTTCTTCCEEECCSS-CCCBCGG
T ss_pred             CC-ccccchh-hcCCCccCEEECCCC-cCCCChh
Confidence            87 5777765 778999999999998 5666654

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.01  E-value=5.8e-10  Score=113.62  Aligned_cols=186  Identities=17%  Similarity=0.153  Sum_probs=87.3

Q ss_pred             hhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecc
Q 009534          289 ELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       289 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      .+..+++|+.|+++  .+ .+..++..  ....+++|++|+++++. +..++...+..+++|+.|+++++. +..++...
T Consensus       112 ~~~~l~~L~~L~L~--~n-~l~~l~~~--~~~~l~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~  184 (390)
T 3o6n_A          112 VFQNVPLLTVLVLE--RN-DLSSLPRG--IFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNR-LTHVDLSL  184 (390)
T ss_dssp             TTTTCTTCCEEECC--SS-CCCCCCTT--TTTTCTTCCEEECCSSC-CCBCCTTTTSSCTTCCEEECCSSC-CSBCCGGG
T ss_pred             HhcCCCCCCEEECC--CC-ccCcCCHH--HhcCCCCCcEEECCCCc-cCccChhhccCCCCCCEEECCCCc-CCcccccc
Confidence            34556666666633  22 11222211  11234567777777754 555655556677777777777642 22221110


Q ss_pred             cC-----------Ccc-ccc---------------cccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccc
Q 009534          369 AG-----------GEV-KRI---------------RETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEI  421 (532)
Q Consensus       369 ~~-----------~~~-~~~---------------~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i  421 (532)
                      ..           .+. ..+               .....+++|++|++++|.++..+++..+++|+.|+++++. +..+
T Consensus       185 l~~L~~L~l~~n~l~~~~~~~~L~~L~l~~n~l~~~~~~~~~~L~~L~l~~n~l~~~~~l~~l~~L~~L~Ls~n~-l~~~  263 (390)
T 3o6n_A          185 IPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNE-LEKI  263 (390)
T ss_dssp             CTTCSEEECCSSCCSEEECCSSCSEEECCSSCCCEEECCCCSSCCEEECCSSCCCCCGGGGGCTTCSEEECCSSC-CCEE
T ss_pred             ccccceeecccccccccCCCCcceEEECCCCeeeeccccccccccEEECCCCCCcccHHHcCCCCccEEECCCCc-CCCc
Confidence            00           000 000               0011234566666666655555566666777777776653 3333


Q ss_pred             cccccccCc-----------CcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          422 ISLEKLGEV-----------PSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       422 ~~~~~~~~~-----------~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      +...-..-.           -...+.....+++|+.|+++++ .+..+|.....+++|+.|++++|+ +..+|.
T Consensus       264 ~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~l~~L~~L~L~~N~-i~~~~~  335 (390)
T 3o6n_A          264 MYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHNS-IVTLKL  335 (390)
T ss_dssp             ESGGGTTCSSCCEEECCSSCCCEEECSSSCCTTCCEEECCSS-CCCCCGGGHHHHTTCSEEECCSSC-CCCCCC
T ss_pred             ChhHccccccCCEEECCCCcCcccCcccCCCCCCCEEECCCC-cceecCccccccCcCCEEECCCCc-cceeCc
Confidence            210000000           0000012334556666666655 355555545556666666666654 455554

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.01  E-value=1.3e-09  Score=102.47  Aligned_cols=128  Identities=19%  Similarity=0.165  Sum_probs=86.3

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|+.|+++++. +..++...+..+++|+.|+++++ .+..++.....          .+++|++|++++|+++.++.  
T Consensus        40 ~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~L~~N-~l~~i~~~~~~----------~l~~L~~L~Ls~N~l~~l~~~~  107 (229)
T 3e6j_A           40 TNAQILYLHDNQ-ITKLEPGVFDSLINLKELYLGSN-QLGALPVGVFD----------SLTQLTVLDLGTNQLTVLPSAV  107 (229)
T ss_dssp             TTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTT----------TCTTCCEEECCSSCCCCCCTTT
T ss_pred             CCCCEEEcCCCc-cCccCHHHhhCccCCcEEECCCC-CCCCcChhhcc----------cCCCcCEEECCCCcCCccChhH
Confidence            447778887754 66665455677777888888775 45555554433          57778888888777777654  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC-CcCCCCccEEeecCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR-ALPFPHLKELHVTLCP  477 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~  477 (532)
                      +..+++|+.|+++++. +..++.             .+..+++|+.|+++++ ++..++.. ...+++|+.|++.+.|
T Consensus       108 ~~~l~~L~~L~Ls~N~-l~~lp~-------------~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          108 FDRLVHLKELFMCCNK-LTELPR-------------GIERLTHLTHLALDQN-QLKSIPHGAFDRLSSLTHAYLFGNP  170 (229)
T ss_dssp             TTTCTTCCEEECCSSC-CCSCCT-------------TGGGCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             hCcchhhCeEeccCCc-ccccCc-------------ccccCCCCCEEECCCC-cCCccCHHHHhCCCCCCEEEeeCCC
Confidence            5677788888886543 566655             6667778888888775 56666653 4457777777777654

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.01  E-value=1.3e-09  Score=103.89  Aligned_cols=153  Identities=18%  Similarity=0.173  Sum_probs=116.1

Q ss_pred             ccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCcc
Q 009534          294 KHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEV  373 (532)
Q Consensus       294 ~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~  373 (532)
                      ++|+.|+++  .+. +..+..  .....+++|++|+++++ .+..++...+..+++|+.|+++++ .+..++.....   
T Consensus        35 ~~l~~L~L~--~n~-l~~~~~--~~~~~l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~---  104 (251)
T 3m19_A           35 ADTEKLDLQ--STG-LATLSD--ATFRGLTKLTWLNLDYN-QLQTLSAGVFDDLTELGTLGLANN-QLASLPLGVFD---  104 (251)
T ss_dssp             TTCCEEECT--TSC-CCCCCT--TTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTS-CCCCCCTTTTT---
T ss_pred             CCCCEEEcc--CCC-cCccCH--hHhcCcccCCEEECCCC-cCCccCHhHhccCCcCCEEECCCC-cccccChhHhc---
Confidence            467777743  322 122211  12223578999999996 478887777889999999999986 56666665544   


Q ss_pred             ccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccc
Q 009534          374 KRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGG  451 (532)
Q Consensus       374 ~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  451 (532)
                             .+++|++|++++|+++.++.  +..+++|+.|+++++ .+..++.            ..+..+++|+.|++++
T Consensus       105 -------~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~------------~~~~~l~~L~~L~L~~  164 (251)
T 3m19_A          105 -------HLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTN-QLQSIPA------------GAFDKLTNLQTLSLST  164 (251)
T ss_dssp             -------TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT------------TTTTTCTTCCEEECCS
T ss_pred             -------ccCCCCEEEcCCCcCCCcChhHhccCCcccEEECcCC-cCCccCH------------HHcCcCcCCCEEECCC
Confidence                   68999999999999988875  678999999999876 4676655            2577899999999998


Q ss_pred             cccccccCC-CCcCCCCccEEeecCCC
Q 009534          452 LENLRSIYP-RALPFPHLKELHVTLCP  477 (532)
Q Consensus       452 ~~~L~~i~~-~~~~~p~L~~L~i~~C~  477 (532)
                      + .++.++. ....+++|+.|++.+++
T Consensus       165 N-~l~~~~~~~~~~l~~L~~L~l~~N~  190 (251)
T 3m19_A          165 N-QLQSVPHGAFDRLGKLQTITLFGNQ  190 (251)
T ss_dssp             S-CCSCCCTTTTTTCTTCCEEECCSCC
T ss_pred             C-cCCccCHHHHhCCCCCCEEEeeCCc
Confidence            6 5777776 45678999999999875

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.01  E-value=3.8e-10  Score=121.28  Aligned_cols=151  Identities=17%  Similarity=0.231  Sum_probs=92.4

Q ss_pred             hhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeee
Q 009534          287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI  366 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~  366 (532)
                      +..+..+++|+.|+++  .+. +..++.    ...|++|+.|+|++|. +..++  .+..+++|+.|++++| .+..++.
T Consensus        58 l~~l~~l~~L~~L~Ls--~N~-l~~~~~----l~~l~~L~~L~Ls~N~-l~~l~--~l~~l~~L~~L~Ls~N-~l~~l~~  126 (605)
T 1m9s_A           58 VQGIQYLPNVTKLFLN--GNK-LTDIKP----LTNLKNLGWLFLDENK-IKDLS--SLKDLKKLKSLSLEHN-GISDING  126 (605)
T ss_dssp             CTTGGGCTTCCEEECT--TSC-CCCCGG----GGGCTTCCEEECCSSC-CCCCT--TSTTCTTCCEEECTTS-CCCCCGG
T ss_pred             ChHHccCCCCCEEEee--CCC-CCCChh----hccCCCCCEEECcCCC-CCCCh--hhccCCCCCEEEecCC-CCCCCcc
Confidence            3455566666666633  221 111111    2234567777777653 55554  2666677777777765 3443321


Q ss_pred             cccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccce
Q 009534          367 DYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLER  446 (532)
Q Consensus       367 ~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~  446 (532)
                                  ...+++|+.|+|++|.+..++.+..+++|+.|+|++|. +..++              .+..+++|+.
T Consensus       127 ------------l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~-l~~~~--------------~l~~l~~L~~  179 (605)
T 1m9s_A          127 ------------LVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQ-ISDIV--------------PLAGLTKLQN  179 (605)
T ss_dssp             ------------GGGCTTCSEEECCSSCCCCCGGGGSCTTCSEEECCSSC-CCCCG--------------GGTTCTTCCE
T ss_pred             ------------ccCCCccCEEECCCCccCCchhhcccCCCCEEECcCCc-CCCch--------------hhccCCCCCE
Confidence                        22577777777777777777667777777777777664 44332              2556788888


Q ss_pred             eeccccccccccCCCCcCCCCccEEeecCCC
Q 009534          447 LSLGGLENLRSIYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       447 L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  477 (532)
                      |+|++| .+..++ .+..+++|+.|++++|+
T Consensus       180 L~Ls~N-~i~~l~-~l~~l~~L~~L~L~~N~  208 (605)
T 1m9s_A          180 LYLSKN-HISDLR-ALAGLKNLDVLELFSQE  208 (605)
T ss_dssp             EECCSS-CCCBCG-GGTTCTTCSEEECCSEE
T ss_pred             EECcCC-CCCCCh-HHccCCCCCEEEccCCc
Confidence            888876 466664 46677888888888775

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.00  E-value=4e-10  Score=121.71  Aligned_cols=150  Identities=15%  Similarity=0.154  Sum_probs=94.7

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc--CC
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH--VT  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~--l~  399 (532)
                      +++|+.|+++++.-....+...+..+++|+.|++++|. +.......          ...+++|++|++++|.+..  +|
T Consensus       398 l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~----------~~~l~~L~~L~l~~n~l~~~~~~  466 (606)
T 3vq2_A          398 LEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTN-TKIDFDGI----------FLGLTSLNTLKMAGNSFKDNTLS  466 (606)
T ss_dssp             CTTCCEEECTTSEEESTTTTTTTTTCTTCCEEECTTSC-CEECCTTT----------TTTCTTCCEEECTTCEEGGGEEC
T ss_pred             CCCCCeeECCCCccCCccChhhhhccccCCEEECcCCC-CCccchhh----------hcCCCCCCEEECCCCcCCCcchH
Confidence            34466666655432222222335556666666666653 22222222          2357888888888886654  34


Q ss_pred             c-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc-CCCCcCCCCccEEeecCCC
Q 009534          400 W-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-YPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       400 ~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~  477 (532)
                      . +..+++|+.|++++|. +..++.            ..+..+++|++|+++++. +..+ |.....+++|+.|++++|.
T Consensus       467 ~~~~~l~~L~~L~Ls~n~-l~~~~~------------~~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~l~~N~  532 (606)
T 3vq2_A          467 NVFANTTNLTFLDLSKCQ-LEQISW------------GVFDTLHRLQLLNMSHNN-LLFLDSSHYNQLYSLSTLDCSFNR  532 (606)
T ss_dssp             SCCTTCTTCCEEECTTSC-CCEECT------------TTTTTCTTCCEEECCSSC-CSCEEGGGTTTCTTCCEEECTTSC
T ss_pred             HhhccCCCCCEEECCCCc-CCccCh------------hhhcccccCCEEECCCCc-CCCcCHHHccCCCcCCEEECCCCc
Confidence            3 6778888888888774 444433            267889999999999984 4444 6667789999999999985


Q ss_pred             CCCCCCCCCCCCCCceeEEe
Q 009534          478 KLKKLPFDCTSGHERKLIIK  497 (532)
Q Consensus       478 ~L~~lp~~~~~~l~~L~~~~  497 (532)
                       ++.+|.......++|+..+
T Consensus       533 -l~~~p~~~~~l~~~L~~l~  551 (606)
T 3vq2_A          533 -IETSKGILQHFPKSLAFFN  551 (606)
T ss_dssp             -CCCEESCGGGSCTTCCEEE
T ss_pred             -CcccCHhHhhhcccCcEEE
Confidence             8888876433322355444

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.00  E-value=6.2e-10  Score=120.06  Aligned_cols=187  Identities=17%  Similarity=0.152  Sum_probs=86.6

Q ss_pred             hhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecc
Q 009534          289 ELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       289 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      .+..+++|+.|+++  ++ .+..++..  ....+++|++|+++++. +..++...+..+++|+.|+++++. +..++...
T Consensus       118 ~~~~l~~L~~L~L~--~n-~l~~l~~~--~~~~l~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~  190 (597)
T 3oja_B          118 VFQNVPLLTVLVLE--RN-DLSSLPRG--IFHNTPKLTTLSMSNNN-LERIEDDTFQATTSLQNLQLSSNR-LTHVDLSL  190 (597)
T ss_dssp             TTTTCTTCCEEECC--SS-CCCCCCTT--TTTTCTTCCEEECCSSC-CCBCCTTTTTTCTTCCEEECTTSC-CSBCCGGG
T ss_pred             HHcCCCCCCEEEee--CC-CCCCCCHH--HhccCCCCCEEEeeCCc-CCCCChhhhhcCCcCcEEECcCCC-CCCcChhh
Confidence            34556666666633  22 11222211  11234667777777754 566655556777777777777652 33222111


Q ss_pred             cC-----------Ccc-cccc---------------ccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccc
Q 009534          369 AG-----------GEV-KRIR---------------ETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEI  421 (532)
Q Consensus       369 ~~-----------~~~-~~~~---------------~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i  421 (532)
                      ..           .+. ..+.               ....+++|++|++++|.++..+++..+++|+.|++++|. +..+
T Consensus       191 l~~L~~L~l~~n~l~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l~~L~~L~Ls~N~-l~~~  269 (597)
T 3oja_B          191 IPSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNE-LEKI  269 (597)
T ss_dssp             CTTCSEEECCSSCCSEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGGGCTTCSEEECCSSC-CCEE
T ss_pred             hhhhhhhhcccCccccccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCCChhhccCCCCCEEECCCCc-cCCC
Confidence            00           000 0000               001123455555555555555555666666666665543 2222


Q ss_pred             cccccccCc-----------CcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCC
Q 009534          422 ISLEKLGEV-----------PSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFD  485 (532)
Q Consensus       422 ~~~~~~~~~-----------~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~  485 (532)
                      ++..-..-.           -..-+.....+++|+.|+++++ .+..+|.....+++|+.|++++|+ +..+|..
T Consensus       270 ~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~l~~L~~L~L~~N~-l~~~~~~  342 (597)
T 3oja_B          270 MYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHN-HLLHVERNQPQFDRLENLYLDHNS-IVTLKLS  342 (597)
T ss_dssp             ESGGGTTCSSCCEEECTTSCCCEEECSSSCCTTCCEEECCSS-CCCCCGGGHHHHTTCSEEECCSSC-CCCCCCC
T ss_pred             CHHHhcCccCCCEEECCCCCCCCCCcccccCCCCcEEECCCC-CCCccCcccccCCCCCEEECCCCC-CCCcChh
Confidence            210000000           0000013344566666666654 344555555556666666666653 4455543

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=98.99  E-value=9.3e-10  Score=110.06  Aligned_cols=104  Identities=12%  Similarity=0.092  Sum_probs=77.1

Q ss_pred             CCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccC
Q 009534          380 HGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIY  459 (532)
Q Consensus       380 ~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~  459 (532)
                      ..+++|++|++++|.++.++.+..+++|+.|++++|. +..+ .             .+..+++|+.|++++| .+..++
T Consensus       218 ~~~~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~-l~~~-~-------------~~~~l~~L~~L~l~~n-~l~~~~  281 (347)
T 4fmz_A          218 ANMTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQ-ISDI-N-------------AVKDLTKLKMLNVGSN-QISDIS  281 (347)
T ss_dssp             GGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSC-CCCC-G-------------GGTTCTTCCEEECCSS-CCCCCG
T ss_pred             hcCCcCCEEEccCCccCCCcchhcCCCCCEEECCCCc-cCCC-h-------------hHhcCCCcCEEEccCC-ccCCCh
Confidence            4689999999999998888888999999999998874 5554 2             4677899999999997 577774


Q ss_pred             CCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecchh
Q 009534          460 PRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEE  501 (532)
Q Consensus       460 ~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~  501 (532)
                       ....+++|+.|++++|+--...|..... ++.|+..+....
T Consensus       282 -~~~~l~~L~~L~L~~n~l~~~~~~~l~~-l~~L~~L~L~~n  321 (347)
T 4fmz_A          282 -VLNNLSQLNSLFLNNNQLGNEDMEVIGG-LTNLTTLFLSQN  321 (347)
T ss_dssp             -GGGGCTTCSEEECCSSCCCGGGHHHHHT-CTTCSEEECCSS
T ss_pred             -hhcCCCCCCEEECcCCcCCCcChhHhhc-cccCCEEEccCC
Confidence             3667899999999999543333332222 245555554433

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=98.98  E-value=5.6e-10  Score=117.19  Aligned_cols=88  Identities=14%  Similarity=0.091  Sum_probs=43.8

Q ss_pred             CCCCccEEEEeCCccccCC--chh-cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccc
Q 009534          381 GFFSLHKVSIWGSKLRHVT--WLI-LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRS  457 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~l~--~l~-~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~  457 (532)
                      .+++|++|++++|.+..++  .+. .+++|+.|++++|. +..++.              ...+++|+.|+++++ .+..
T Consensus       142 ~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~N~-l~~~~~--------------~~~l~~L~~L~Ls~N-~l~~  205 (487)
T 3oja_A          142 CRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNF-IYDVKG--------------QVVFAKLKTLDLSSN-KLAF  205 (487)
T ss_dssp             GGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTSC-CCEEEC--------------CCCCTTCCEEECCSS-CCCE
T ss_pred             CCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCCCc-cccccc--------------cccCCCCCEEECCCC-CCCC
Confidence            4556666666665554422  122 45566666665543 333322              223555555555554 3445


Q ss_pred             cCCCCcCCCCccEEeecCCCCCCCCCCC
Q 009534          458 IYPRALPFPHLKELHVTLCPKLKKLPFD  485 (532)
Q Consensus       458 i~~~~~~~p~L~~L~i~~C~~L~~lp~~  485 (532)
                      +|.....+++|+.|++++| ++..+|..
T Consensus       206 ~~~~~~~l~~L~~L~Ls~N-~l~~lp~~  232 (487)
T 3oja_A          206 MGPEFQSAAGVTWISLRNN-KLVLIEKA  232 (487)
T ss_dssp             ECGGGGGGTTCSEEECTTS-CCCEECTT
T ss_pred             CCHhHcCCCCccEEEecCC-cCcccchh
Confidence            5444445555555555554 34445543

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=98.98  E-value=6.7e-10  Score=119.37  Aligned_cols=153  Identities=16%  Similarity=0.270  Sum_probs=113.0

Q ss_pred             hcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeeccc
Q 009534          290 LLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYA  369 (532)
Q Consensus       290 l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~  369 (532)
                      +..|++|+.|+++  .+. +..++.    ...|++|+.|+|++|. +..++.  +..+++|+.|++++| .+..++  . 
T Consensus        39 ~~~L~~L~~L~l~--~n~-i~~l~~----l~~l~~L~~L~Ls~N~-l~~~~~--l~~l~~L~~L~Ls~N-~l~~l~--~-  104 (605)
T 1m9s_A           39 QNELNSIDQIIAN--NSD-IKSVQG----IQYLPNVTKLFLNGNK-LTDIKP--LTNLKNLGWLFLDEN-KIKDLS--S-  104 (605)
T ss_dssp             HHHHTTCCCCBCT--TCC-CCCCTT----GGGCTTCCEEECTTSC-CCCCGG--GGGCTTCCEEECCSS-CCCCCT--T-
T ss_pred             hhcCCCCCEEECc--CCC-CCCChH----HccCCCCCEEEeeCCC-CCCChh--hccCCCCCEEECcCC-CCCCCh--h-
Confidence            3445667777743  321 222221    2345789999999975 777765  788999999999987 455443  1 


Q ss_pred             CCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeec
Q 009534          370 GGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSL  449 (532)
Q Consensus       370 ~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l  449 (532)
                               ...+++|++|+|++|.+..++.+..+++|+.|+|++|. +..+ .             .+..+++|+.|+|
T Consensus       105 ---------l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~-l~~l-~-------------~l~~l~~L~~L~L  160 (605)
T 1m9s_A          105 ---------LKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNK-ITDI-T-------------VLSRLTKLDTLSL  160 (605)
T ss_dssp             ---------STTCTTCCEEECTTSCCCCCGGGGGCTTCSEEECCSSC-CCCC-G-------------GGGSCTTCSEEEC
T ss_pred             ---------hccCCCCCEEEecCCCCCCCccccCCCccCEEECCCCc-cCCc-h-------------hhcccCCCCEEEC
Confidence                     23689999999999988888889999999999998874 5554 3             5777899999999


Q ss_pred             cccccccccCCCCcCCCCccEEeecCCCCCCCCC
Q 009534          450 GGLENLRSIYPRALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       450 ~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      ++| .+..++. +..+++|+.|++++| .+..+|
T Consensus       161 s~N-~l~~~~~-l~~l~~L~~L~Ls~N-~i~~l~  191 (605)
T 1m9s_A          161 EDN-QISDIVP-LAGLTKLQNLYLSKN-HISDLR  191 (605)
T ss_dssp             CSS-CCCCCGG-GTTCTTCCEEECCSS-CCCBCG
T ss_pred             cCC-cCCCchh-hccCCCCCEEECcCC-CCCCCh
Confidence            987 4666655 778999999999987 555554

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.98  E-value=2.6e-09  Score=98.66  Aligned_cols=130  Identities=18%  Similarity=0.139  Sum_probs=95.2

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|++|+++++. +..++...+..+++|++|+++++ .++.++.....          .+++|++|++++|+++.++.  
T Consensus        28 ~~l~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~----------~l~~L~~L~Ls~n~l~~~~~~~   95 (208)
T 2o6s_A           28 AQTTYLDLETNS-LKSLPNGVFDELTSLTQLYLGGN-KLQSLPNGVFN----------KLTSLTYLNLSTNQLQSLPNGV   95 (208)
T ss_dssp             TTCSEEECCSSC-CCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTT----------TCTTCCEEECCSSCCCCCCTTT
T ss_pred             CCCcEEEcCCCc-cCcCChhhhcccccCcEEECCCC-ccCccChhhcC----------CCCCcCEEECCCCcCCccCHhH
Confidence            458888888864 77777666778888888888885 56656554433          57888889888888777765  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC-CcCCCCccEEeecCCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR-ALPFPHLKELHVTLCPK  478 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~~  478 (532)
                      +..+++|+.|+++++. +..++.            ..+..+++|+.|++.++ .++.++.. ...+++|+.|++.+++-
T Consensus        96 ~~~l~~L~~L~L~~N~-l~~~~~------------~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~~  160 (208)
T 2o6s_A           96 FDKLTQLKELALNTNQ-LQSLPD------------GVFDKLTQLKDLRLYQN-QLKSVPDGVFDRLTSLQYIWLHDNPW  160 (208)
T ss_dssp             TTTCTTCCEEECCSSC-CCCCCT------------TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSCCB
T ss_pred             hcCccCCCEEEcCCCc-CcccCH------------hHhccCCcCCEEECCCC-ccceeCHHHhccCCCccEEEecCCCe
Confidence            5778888888887653 555544            24567888888888875 56677664 45688888888888643

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=98.97  E-value=9.6e-10  Score=107.99  Aligned_cols=102  Identities=15%  Similarity=0.208  Sum_probs=64.9

Q ss_pred             CCCCccEEEEeCCcccc--CC-chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccc
Q 009534          381 GFFSLHKVSIWGSKLRH--VT-WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRS  457 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~--l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~  457 (532)
                      .+++|++|++++|.+..  +| .+..+++|+.|++++|. +..++.            ..+..+++|+.|+++++. +..
T Consensus       148 ~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~------------~~~~~l~~L~~L~L~~N~-l~~  213 (306)
T 2z66_A          148 GLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSP------------TAFNSLSSLQVLNMSHNN-FFS  213 (306)
T ss_dssp             TCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTTSC-CCEECT------------TTTTTCTTCCEEECTTSC-CSB
T ss_pred             cCcCCCEEECCCCccccccchhHHhhCcCCCEEECCCCC-cCCcCH------------HHhcCCCCCCEEECCCCc-cCc
Confidence            56777777777775543  33 25667777777777654 444432            267778899999998864 566


Q ss_pred             cCC-CCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEE
Q 009534          458 IYP-RALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLII  496 (532)
Q Consensus       458 i~~-~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~  496 (532)
                      ++. ....+++|+.|++++|.--...|.........|+..
T Consensus       214 ~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~~L~~L  253 (306)
T 2z66_A          214 LDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFL  253 (306)
T ss_dssp             CCSGGGTTCTTCCEEECTTSCCCBCSSSSCCCCCTTCCEE
T ss_pred             cChhhccCcccCCEeECCCCCCcccCHHHHHhhhccCCEE
Confidence            655 445688999999999865444454433322344444

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=98.97  E-value=1.9e-09  Score=109.78  Aligned_cols=31  Identities=29%  Similarity=0.401  Sum_probs=16.0

Q ss_pred             CCCCccEEEEeCCccccCCchhcCCCcceeee
Q 009534          381 GFFSLHKVSIWGSKLRHVTWLILAPNLKLIQM  412 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l  412 (532)
                      .+++|++|++++|.++.++ +..+++|+.|++
T Consensus       163 ~l~~L~~L~l~~n~l~~~~-~~~l~~L~~L~l  193 (390)
T 3o6n_A          163 ATTSLQNLQLSSNRLTHVD-LSLIPSLFHANV  193 (390)
T ss_dssp             SCTTCCEEECCSSCCSBCC-GGGCTTCSEEEC
T ss_pred             CCCCCCEEECCCCcCCccc-cccccccceeec
Confidence            4566666666666555543 334444444433

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=98.97  E-value=2.7e-09  Score=107.03  Aligned_cols=190  Identities=13%  Similarity=0.099  Sum_probs=121.0

Q ss_pred             ccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCcc
Q 009534          294 KHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEV  373 (532)
Q Consensus       294 ~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~  373 (532)
                      ++++.|+++-..   ++.++..  ....+++|++|+|+++.-++.++...+.++++|..+.+.++..+..++.+...   
T Consensus        30 ~~l~~L~Ls~N~---i~~i~~~--~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~---  101 (350)
T 4ay9_X           30 RNAIELRFVLTK---LRVIQKG--AFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQ---  101 (350)
T ss_dssp             TTCSEEEEESCC---CSEECTT--SSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBC---
T ss_pred             CCCCEEEccCCc---CCCcCHH--HHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCchhhh---
Confidence            467777754222   2233221  12235668888888776566676666677777777766666777777655544   


Q ss_pred             ccccccCCCCCccEEEEeCCccccCCch--hcCCCcceeeeccccccccccccccccCcC------------cccCcccc
Q 009534          374 KRIRETHGFFSLHKVSIWGSKLRHVTWL--ILAPNLKLIQMYDCRCLEEIISLEKLGEVP------------SEEMQNLI  439 (532)
Q Consensus       374 ~~~~~~~~l~~L~~L~l~~c~L~~l~~l--~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~------------~~~~~~~~  439 (532)
                             .+++|++|++++|+++.++..  ....++..|++.++..+..++...-.....            ..-+....
T Consensus       102 -------~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~~f  174 (350)
T 4ay9_X          102 -------NLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAF  174 (350)
T ss_dssp             -------CCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTSS
T ss_pred             -------hccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCChhhc
Confidence                   688888888888877776643  334456666776666666554321100000            00111334


Q ss_pred             cccccceeeccccccccccCCCC-cCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecc
Q 009534          440 PFARLERLSLGGLENLRSIYPRA-LPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       440 ~~~~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      ..++|+.|.+.++..++.+|... ..+++|+.|+++++ +++.+|.+....+++|+..++.
T Consensus       175 ~~~~L~~l~l~~~n~l~~i~~~~f~~l~~L~~LdLs~N-~l~~lp~~~~~~L~~L~~l~~~  234 (350)
T 4ay9_X          175 NGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRT-RIHSLPSYGLENLKKLRARSTY  234 (350)
T ss_dssp             TTEEEEEEECTTCTTCCCCCTTTTTTEECCSEEECTTS-CCCCCCSSSCTTCCEEECTTCT
T ss_pred             cccchhHHhhccCCcccCCCHHHhccCcccchhhcCCC-CcCccChhhhccchHhhhccCC
Confidence            45788999998888899998754 57899999999987 7999988665556777666553

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=98.97  E-value=3.5e-09  Score=109.98  Aligned_cols=105  Identities=20%  Similarity=0.179  Sum_probs=72.8

Q ss_pred             cCCCCCccEEEEeCCccccCC--chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccc
Q 009534          379 THGFFSLHKVSIWGSKLRHVT--WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLR  456 (532)
Q Consensus       379 ~~~l~~L~~L~l~~c~L~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~  456 (532)
                      ...+++|++|++++|.+..++  .+..+++|+.|++++|. +..++.            ..+..+++|++|+++++. +.
T Consensus       295 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~------------~~~~~l~~L~~L~Ls~N~-l~  360 (455)
T 3v47_A          295 FSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNF-LGSIDS------------RMFENLDKLEVLDLSYNH-IR  360 (455)
T ss_dssp             TTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSC-CCEECG------------GGGTTCTTCCEEECCSSC-CC
T ss_pred             cccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCc-cCCcCh------------hHhcCcccCCEEECCCCc-cc
Confidence            345677777777777666643  36677777777777664 444432            267788999999999874 55


Q ss_pred             cc-CCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEec
Q 009534          457 SI-YPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKG  498 (532)
Q Consensus       457 ~i-~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~  498 (532)
                      .+ |.....+++|+.|++++| +++.+|......+++|+..+.
T Consensus       361 ~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~l  402 (455)
T 3v47_A          361 ALGDQSFLGLPNLKELALDTN-QLKSVPDGIFDRLTSLQKIWL  402 (455)
T ss_dssp             EECTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEEC
T ss_pred             ccChhhccccccccEEECCCC-ccccCCHhHhccCCcccEEEc
Confidence            66 556778999999999996 677888754333455555543

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=98.97  E-value=3.6e-09  Score=105.10  Aligned_cols=44  Identities=11%  Similarity=0.070  Sum_probs=22.3

Q ss_pred             cccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCC
Q 009534          438 LIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       438 ~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      +..+++|++|+++++ .+..+|.....+++|+.|++++| +++.+|
T Consensus       236 ~~~l~~L~~L~L~~N-~l~~lp~~l~~l~~L~~L~l~~N-~i~~~~  279 (330)
T 1xku_A          236 LANTPHLRELHLNNN-KLVKVPGGLADHKYIQVVYLHNN-NISAIG  279 (330)
T ss_dssp             GGGSTTCCEEECCSS-CCSSCCTTTTTCSSCCEEECCSS-CCCCCC
T ss_pred             ccCCCCCCEEECCCC-cCccCChhhccCCCcCEEECCCC-cCCccC
Confidence            444555555555554 34455554555555555555554 244444

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=98.97  E-value=1.4e-09  Score=121.14  Aligned_cols=157  Identities=11%  Similarity=0.082  Sum_probs=108.6

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-hh
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LI  402 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~  402 (532)
                      +|+.|++++|. +..+|...+..+++|+.|+++++ .+..+|.....   ...+...++++|++|+|++|+++.+|. +.
T Consensus       674 ~L~~L~Ls~N~-L~~lp~~~~~~l~~L~~L~Ls~N-~L~~ip~~~~~---~~~~~l~nl~~L~~L~Ls~N~L~~lp~~l~  748 (876)
T 4ecn_A          674 NASTVTLSYNE-IQKFPTELFATGSPISTIILSNN-LMTSIPENSLK---PKDGNYKNTYLLTTIDLRFNKLTSLSDDFR  748 (876)
T ss_dssp             CEEEEECCSSC-CCSCCHHHHHTTCCCSEEECCSC-CCSCCCTTSSS---CTTSCCTTGGGCCEEECCSSCCCCCCGGGS
T ss_pred             CcCEEEccCCc-CCccCHHHHccCCCCCEEECCCC-cCCccChHHhc---cccccccccCCccEEECCCCCCccchHHhh
Confidence            56677777654 55666554456777888888776 45556554332   000112234589999999998888876 44


Q ss_pred             --cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccc------cccccccCCCCcCCCCccEEeec
Q 009534          403 --LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGG------LENLRSIYPRALPFPHLKELHVT  474 (532)
Q Consensus       403 --~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~------~~~L~~i~~~~~~~p~L~~L~i~  474 (532)
                        .+++|+.|+|++|. +..++.             .+..+++|+.|++++      +.-...+|..+..+++|+.|+++
T Consensus       749 ~~~l~~L~~L~Ls~N~-L~~lp~-------------~l~~L~~L~~L~Ls~N~~ls~N~l~~~ip~~l~~L~~L~~L~Ls  814 (876)
T 4ecn_A          749 ATTLPYLSNMDVSYNC-FSSFPT-------------QPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIG  814 (876)
T ss_dssp             TTTCTTCCEEECCSSC-CSSCCC-------------GGGGCTTCCEEECCCCBCTTCCBCCCCCCTTGGGCSSCCEEECC
T ss_pred             hccCCCcCEEEeCCCC-CCccch-------------hhhcCCCCCEEECCCCCCcccccccccChHHHhcCCCCCEEECC
Confidence              78999999998764 566665             778899999999976      33355677778889999999999


Q ss_pred             CCCCCCCCCCCCCCCCCceeEEecchhhh
Q 009534          475 LCPKLKKLPFDCTSGHERKLIIKGQEEWW  503 (532)
Q Consensus       475 ~C~~L~~lp~~~~~~l~~L~~~~~~~~w~  503 (532)
                      +|.- ..+|....   ++|+..+...+.+
T Consensus       815 ~N~L-~~Ip~~l~---~~L~~LdLs~N~l  839 (876)
T 4ecn_A          815 SNDI-RKVDEKLT---PQLYILDIADNPN  839 (876)
T ss_dssp             SSCC-CBCCSCCC---SSSCEEECCSCTT
T ss_pred             CCCC-CccCHhhc---CCCCEEECCCCCC
Confidence            9865 99998755   3455555544433

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=98.96  E-value=2e-09  Score=116.13  Aligned_cols=77  Identities=29%  Similarity=0.295  Sum_probs=35.3

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchh
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLI  402 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~  402 (532)
                      ++|++|+++++. +..+|...+.++++|++|+++++ .+..++....          ..+++|++|++++|.+..++ +.
T Consensus       123 ~~L~~L~L~~n~-l~~l~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~----------~~l~~L~~L~L~~N~l~~~~-~~  189 (597)
T 3oja_B          123 PLLTVLVLERND-LSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTF----------QATTSLQNLQLSSNRLTHVD-LS  189 (597)
T ss_dssp             TTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCBCCTTTT----------TTCTTCCEEECTTSCCSBCC-GG
T ss_pred             CCCCEEEeeCCC-CCCCCHHHhccCCCCCEEEeeCC-cCCCCChhhh----------hcCCcCcEEECcCCCCCCcC-hh
Confidence            445555555432 44444443344455555555544 2332322221          24566666666666555543 33


Q ss_pred             cCCCcceeee
Q 009534          403 LAPNLKLIQM  412 (532)
Q Consensus       403 ~l~~L~~L~l  412 (532)
                      .+++|+.|++
T Consensus       190 ~l~~L~~L~l  199 (597)
T 3oja_B          190 LIPSLFHANV  199 (597)
T ss_dssp             GCTTCSEEEC
T ss_pred             hhhhhhhhhc
Confidence            4444444433

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=98.95  E-value=1.7e-09  Score=117.42  Aligned_cols=159  Identities=14%  Similarity=0.118  Sum_probs=103.1

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-hh
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LI  402 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~  402 (532)
                      +|+.|+++++. +..+|...+..+++|+.|+++++ .+..+|.....   ...+....+++|++|++++|+++.+|. +.
T Consensus       434 ~L~~L~Ls~N~-l~~lp~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~---~~~~~~~~l~~L~~L~Ls~N~l~~lp~~~~  508 (636)
T 4eco_A          434 NVSSINLSNNQ-ISKFPKELFSTGSPLSSINLMGN-MLTEIPKNSLK---DENENFKNTYLLTSIDLRFNKLTKLSDDFR  508 (636)
T ss_dssp             CEEEEECCSSC-CCSCCTHHHHTTCCCSEEECCSS-CCSBCCSSSSE---ETTEECTTGGGCCEEECCSSCCCBCCGGGS
T ss_pred             CCCEEECcCCc-cCcCCHHHHccCCCCCEEECCCC-CCCCcCHHHhc---cccccccccCCccEEECcCCcCCccChhhh
Confidence            46666666643 45555543445666777777665 34445543322   000011223488899998887778775 43


Q ss_pred             --cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccc------cccccccCCCCcCCCCccEEeec
Q 009534          403 --LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGG------LENLRSIYPRALPFPHLKELHVT  474 (532)
Q Consensus       403 --~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~------~~~L~~i~~~~~~~p~L~~L~i~  474 (532)
                        .+++|+.|+++++. +..++.             .+..+++|+.|++++      +.-...+|..+..+++|+.|+++
T Consensus       509 ~~~l~~L~~L~Ls~N~-l~~ip~-------------~~~~l~~L~~L~Ls~N~~ls~N~l~~~~p~~l~~l~~L~~L~Ls  574 (636)
T 4eco_A          509 ATTLPYLVGIDLSYNS-FSKFPT-------------QPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSLTQLQIG  574 (636)
T ss_dssp             TTTCTTCCEEECCSSC-CSSCCC-------------GGGGCSSCCEEECCSCBCTTCCBCCCCCCTTGGGCSSCCEEECC
T ss_pred             hccCCCcCEEECCCCC-CCCcCh-------------hhhcCCCCCEEECCCCcccccCcccccChHHHhcCCCCCEEECC
Confidence              78889999998765 555655             777889999999954      44456677778889999999999


Q ss_pred             CCCCCCCCCCCCCCCCCceeEEecchhhhhh
Q 009534          475 LCPKLKKLPFDCTSGHERKLIIKGQEEWWNN  505 (532)
Q Consensus       475 ~C~~L~~lp~~~~~~l~~L~~~~~~~~w~~~  505 (532)
                      +|.- ..+|....   +.|+..+...+.+..
T Consensus       575 ~N~l-~~ip~~~~---~~L~~L~Ls~N~l~~  601 (636)
T 4eco_A          575 SNDI-RKVNEKIT---PNISVLDIKDNPNIS  601 (636)
T ss_dssp             SSCC-CBCCSCCC---TTCCEEECCSCTTCE
T ss_pred             CCcC-CccCHhHh---CcCCEEECcCCCCcc
Confidence            9865 88888654   455555555544443

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=98.95  E-value=2.1e-09  Score=105.92  Aligned_cols=152  Identities=13%  Similarity=0.081  Sum_probs=87.7

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCccee--eecccCCccccccccCCCCCccEEEEeCCccccCCc
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEM--EIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l--~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~  400 (532)
                      ++|++|+++++. +..++...+..+++|+.|+++++.-...+  +....         ...+++|++|++++|+++.++.
T Consensus       149 ~~L~~L~L~~N~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~---------~~~l~~L~~L~L~~N~l~~~~~  218 (312)
T 1wwl_A          149 PGLKVLSIAQAH-SLNFSCEQVRVFPALSTLDLSDNPELGERGLISALC---------PLKFPTLQVLALRNAGMETPSG  218 (312)
T ss_dssp             TTCCEEEEESCS-CCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSC---------TTSCTTCCEEECTTSCCCCHHH
T ss_pred             CCCcEEEeeCCC-CccchHHHhccCCCCCEEECCCCCcCcchHHHHHHH---------hccCCCCCEEECCCCcCcchHH
Confidence            457777776644 55555444666667777777665422211  11110         1246777777777776664321


Q ss_pred             -----hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecC
Q 009534          401 -----LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTL  475 (532)
Q Consensus       401 -----l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~  475 (532)
                           +..+++|+.|+++++. +...++           ...+..+++|++|+++++ .++.+|....  ++|+.|++++
T Consensus       219 ~~~~~~~~l~~L~~L~Ls~N~-l~~~~~-----------~~~~~~l~~L~~L~Ls~N-~l~~ip~~~~--~~L~~L~Ls~  283 (312)
T 1wwl_A          219 VCSALAAARVQLQGLDLSHNS-LRDAAG-----------APSCDWPSQLNSLNLSFT-GLKQVPKGLP--AKLSVLDLSY  283 (312)
T ss_dssp             HHHHHHHTTCCCSEEECTTSC-CCSSCC-----------CSCCCCCTTCCEEECTTS-CCSSCCSSCC--SEEEEEECCS
T ss_pred             HHHHHHhcCCCCCEEECCCCc-CCcccc-----------hhhhhhcCCCCEEECCCC-ccChhhhhcc--CCceEEECCC
Confidence                 2356777777776654 333321           013444677888888775 4667766554  7788888877


Q ss_pred             CCCCCCCCCCCCCCCCceeEEecchhh
Q 009534          476 CPKLKKLPFDCTSGHERKLIIKGQEEW  502 (532)
Q Consensus       476 C~~L~~lp~~~~~~l~~L~~~~~~~~w  502 (532)
                      + +++.+|. .. .++.|+..+...+.
T Consensus       284 N-~l~~~p~-~~-~l~~L~~L~L~~N~  307 (312)
T 1wwl_A          284 N-RLDRNPS-PD-ELPQVGNLSLKGNP  307 (312)
T ss_dssp             S-CCCSCCC-TT-TSCEEEEEECTTCT
T ss_pred             C-CCCCChh-Hh-hCCCCCEEeccCCC
Confidence            6 5666665 22 24667766665443

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=98.95  E-value=3.3e-10  Score=113.79  Aligned_cols=39  Identities=10%  Similarity=-0.060  Sum_probs=18.2

Q ss_pred             ccccccccceeeccccccccccCCCC-cCCCCccEEeecCC
Q 009534          437 NLIPFARLERLSLGGLENLRSIYPRA-LPFPHLKELHVTLC  476 (532)
Q Consensus       437 ~~~~~~~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C  476 (532)
                      .+..+++|++|++.++. +..++... ..+++|+.|++++|
T Consensus       193 ~l~~l~~L~~L~l~~n~-l~~~~~~~~~~~~~L~~L~L~~n  232 (353)
T 2z80_A          193 SLKSIQNVSHLILHMKQ-HILLLEIFVDVTSSVECLELRDT  232 (353)
T ss_dssp             TTTTCSEEEEEEEECSC-STTHHHHHHHHTTTEEEEEEESC
T ss_pred             HHhccccCCeecCCCCc-cccchhhhhhhcccccEEECCCC
Confidence            44445555555555432 33333211 12455666666554

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=98.94  E-value=7.9e-10  Score=108.59  Aligned_cols=150  Identities=15%  Similarity=0.091  Sum_probs=86.1

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|++|+++++. +..+|.. +..+++|+.|+++++ .+..++.         ......+++|++|++++|.+...+.  
T Consensus        78 ~~L~~L~Ls~n~-i~~l~~~-~~~l~~L~~L~l~~n-~l~~~~~---------~~~~~~l~~L~~L~l~~n~l~~~~~~~  145 (306)
T 2z66_A           78 TSLKYLDLSFNG-VITMSSN-FLGLEQLEHLDFQHS-NLKQMSE---------FSVFLSLRNLIYLDISHTHTRVAFNGI  145 (306)
T ss_dssp             SCCCEEECCSCS-EEEEEEE-EETCTTCCEEECTTS-EEESSTT---------TTTTTTCTTCCEEECTTSCCEECSTTT
T ss_pred             cccCEEECCCCc-cccChhh-cCCCCCCCEEECCCC-ccccccc---------chhhhhccCCCEEECCCCcCCccchhh
Confidence            445566665543 4444433 455556666666554 2222221         0112356777777777775554322  


Q ss_pred             hhcCCCcceeeeccccccc-cccccccccCcCcccCcccccccccceeecccccccccc-CCCCcCCCCccEEeecCCCC
Q 009534          401 LILAPNLKLIQMYDCRCLE-EIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-YPRALPFPHLKELHVTLCPK  478 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~-~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~~  478 (532)
                      +..+++|++|+++++.-.. .++.             .+..+++|++|+++++ .+..+ +.....+++|+.|++++|. 
T Consensus       146 ~~~l~~L~~L~l~~n~l~~~~~~~-------------~~~~l~~L~~L~Ls~n-~l~~~~~~~~~~l~~L~~L~L~~N~-  210 (306)
T 2z66_A          146 FNGLSSLEVLKMAGNSFQENFLPD-------------IFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSHNN-  210 (306)
T ss_dssp             TTTCTTCCEEECTTCEEGGGEECS-------------CCTTCTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECTTSC-
T ss_pred             cccCcCCCEEECCCCccccccchh-------------HHhhCcCCCEEECCCC-CcCCcCHHHhcCCCCCCEEECCCCc-
Confidence            5667777777777664222 1232             6777888999998886 45566 4456678889999998874 


Q ss_pred             CCCCCCCCCCCCCceeEEecc
Q 009534          479 LKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       479 L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      +..+|......+.+|+..+..
T Consensus       211 l~~~~~~~~~~l~~L~~L~L~  231 (306)
T 2z66_A          211 FFSLDTFPYKCLNSLQVLDYS  231 (306)
T ss_dssp             CSBCCSGGGTTCTTCCEEECT
T ss_pred             cCccChhhccCcccCCEeECC
Confidence            555544222223555555544

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=98.94  E-value=1e-09  Score=108.11  Aligned_cols=152  Identities=18%  Similarity=0.280  Sum_probs=114.2

Q ss_pred             cCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccC
Q 009534          291 LGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAG  370 (532)
Q Consensus       291 ~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~  370 (532)
                      ..+++|+.|++  .++ .+..++.    ...+++|++|++++|. +..++.  +..+++|+.|+++++. +..++.    
T Consensus        38 ~~l~~L~~L~l--~~~-~i~~l~~----~~~l~~L~~L~L~~n~-i~~~~~--~~~l~~L~~L~L~~n~-l~~~~~----  102 (308)
T 1h6u_A           38 ADLDGITTLSA--FGT-GVTTIEG----VQYLNNLIGLELKDNQ-ITDLAP--LKNLTKITELELSGNP-LKNVSA----  102 (308)
T ss_dssp             HHHHTCCEEEC--TTS-CCCCCTT----GGGCTTCCEEECCSSC-CCCCGG--GTTCCSCCEEECCSCC-CSCCGG----
T ss_pred             HHcCCcCEEEe--eCC-CccCchh----hhccCCCCEEEccCCc-CCCChh--HccCCCCCEEEccCCc-CCCchh----
Confidence            34667778874  333 1222321    2235789999999974 777775  8889999999999974 665532    


Q ss_pred             CccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecc
Q 009534          371 GEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLG  450 (532)
Q Consensus       371 ~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  450 (532)
                              ...+++|++|++++|.++.++.+..+++|+.|++++|. +..++              .+..+++|+.|+++
T Consensus       103 --------~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~-l~~~~--------------~l~~l~~L~~L~l~  159 (308)
T 1h6u_A          103 --------IAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQ-ITNIS--------------PLAGLTNLQYLSIG  159 (308)
T ss_dssp             --------GTTCTTCCEEECTTSCCCCCGGGTTCTTCCEEECCSSC-CCCCG--------------GGGGCTTCCEEECC
T ss_pred             --------hcCCCCCCEEECCCCCCCCchhhcCCCCCCEEECCCCc-cCcCc--------------cccCCCCccEEEcc
Confidence                    23689999999999999998889999999999998874 55443              36678999999999


Q ss_pred             ccccccccCCCCcCCCCccEEeecCCCCCCCCC
Q 009534          451 GLENLRSIYPRALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       451 ~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      ++ .+..++. ...+++|+.|++++| ++..+|
T Consensus       160 ~n-~l~~~~~-l~~l~~L~~L~l~~n-~l~~~~  189 (308)
T 1h6u_A          160 NA-QVSDLTP-LANLSKLTTLKADDN-KISDIS  189 (308)
T ss_dssp             SS-CCCCCGG-GTTCTTCCEEECCSS-CCCCCG
T ss_pred             CC-cCCCChh-hcCCCCCCEEECCCC-ccCcCh
Confidence            97 5777765 678999999999987 344443

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=98.93  E-value=5.7e-09  Score=98.01  Aligned_cols=146  Identities=12%  Similarity=0.097  Sum_probs=112.5

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hh
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LI  402 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~  402 (532)
                      .+.++.++ ..+..+|.. ++  ++|+.|+++++ .+..++.....          .+++|++|++++|++..++.  +.
T Consensus        21 ~~~v~c~~-~~l~~ip~~-~~--~~L~~L~Ls~n-~i~~~~~~~~~----------~l~~L~~L~L~~N~l~~i~~~~~~   85 (229)
T 3e6j_A           21 GTTVDCRS-KRHASVPAG-IP--TNAQILYLHDN-QITKLEPGVFD----------SLINLKELYLGSNQLGALPVGVFD   85 (229)
T ss_dssp             TTEEECTT-SCCSSCCSC-CC--TTCSEEECCSS-CCCCCCTTTTT----------TCTTCCEEECCSSCCCCCCTTTTT
T ss_pred             CCEeEccC-CCcCccCCC-CC--CCCCEEEcCCC-ccCccCHHHhh----------CccCCcEEECCCCCCCCcChhhcc
Confidence            45666665 457888864 43  69999999996 56655444433          68999999999999888875  68


Q ss_pred             cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCC
Q 009534          403 LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKL  482 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~l  482 (532)
                      .+++|+.|+++++ .+..++.            ..+..+++|+.|+++++ +++.+|.....+++|+.|+++++ +++.+
T Consensus        86 ~l~~L~~L~Ls~N-~l~~l~~------------~~~~~l~~L~~L~Ls~N-~l~~lp~~~~~l~~L~~L~L~~N-~l~~~  150 (229)
T 3e6j_A           86 SLTQLTVLDLGTN-QLTVLPS------------AVFDRLVHLKELFMCCN-KLTELPRGIERLTHLTHLALDQN-QLKSI  150 (229)
T ss_dssp             TCTTCCEEECCSS-CCCCCCT------------TTTTTCTTCCEEECCSS-CCCSCCTTGGGCTTCSEEECCSS-CCCCC
T ss_pred             cCCCcCEEECCCC-cCCccCh------------hHhCcchhhCeEeccCC-cccccCcccccCCCCCEEECCCC-cCCcc
Confidence            8999999999886 4777755            24678999999999986 68899988889999999999997 78888


Q ss_pred             CCCCCCCCCceeEEecch
Q 009534          483 PFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       483 p~~~~~~l~~L~~~~~~~  500 (532)
                      |......+.+|+.++...
T Consensus       151 ~~~~~~~l~~L~~L~l~~  168 (229)
T 3e6j_A          151 PHGAFDRLSSLTHAYLFG  168 (229)
T ss_dssp             CTTTTTTCTTCCEEECTT
T ss_pred             CHHHHhCCCCCCEEEeeC
Confidence            865444346666665443

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=98.93  E-value=3.8e-09  Score=106.02  Aligned_cols=137  Identities=18%  Similarity=0.232  Sum_probs=91.4

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      +++|++|+++++ .+..++...+..+++|++|+++++ .+..++.....          .+++|++|++++|.++.+|. 
T Consensus        75 l~~L~~L~L~~n-~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~----------~l~~L~~L~L~~n~l~~l~~~  142 (353)
T 2z80_A           75 CVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSYN-YLSNLSSSWFK----------PLSSLTFLNLLGNPYKTLGET  142 (353)
T ss_dssp             CTTCCEEECTTS-CCCEECTTTTTTCTTCCEEECCSS-CCSSCCHHHHT----------TCTTCSEEECTTCCCSSSCSS
T ss_pred             CCCCCEEECCCC-ccCccCHhhcCCCCCCCEEECCCC-cCCcCCHhHhC----------CCccCCEEECCCCCCcccCch
Confidence            466777777775 366665555677777777777775 45555544322          57778888887777777654 


Q ss_pred             --hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc-CCCCcCCCCccEEeecCCC
Q 009534          401 --LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-YPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       401 --l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~  477 (532)
                        +..+++|++|++++|..+..++.            ..+..+++|++|++.++. +..+ +.....+++|+.|++++|.
T Consensus       143 ~~~~~l~~L~~L~l~~n~~~~~~~~------------~~~~~l~~L~~L~l~~n~-l~~~~~~~l~~l~~L~~L~l~~n~  209 (353)
T 2z80_A          143 SLFSHLTKLQILRVGNMDTFTKIQR------------KDFAGLTFLEELEIDASD-LQSYEPKSLKSIQNVSHLILHMKQ  209 (353)
T ss_dssp             CSCTTCTTCCEEEEEESSSCCEECT------------TTTTTCCEEEEEEEEETT-CCEECTTTTTTCSEEEEEEEECSC
T ss_pred             hhhccCCCCcEEECCCCccccccCH------------HHccCCCCCCEEECCCCC-cCccCHHHHhccccCCeecCCCCc
Confidence              56777888888877765665543            256667788888887764 4444 4556677788888887765


Q ss_pred             CCCCCCC
Q 009534          478 KLKKLPF  484 (532)
Q Consensus       478 ~L~~lp~  484 (532)
                       +..+|.
T Consensus       210 -l~~~~~  215 (353)
T 2z80_A          210 -HILLLE  215 (353)
T ss_dssp             -STTHHH
T ss_pred             -cccchh
Confidence             455553

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=98.93  E-value=1e-09  Score=117.34  Aligned_cols=103  Identities=15%  Similarity=0.076  Sum_probs=71.4

Q ss_pred             CCCCCccEEEEeCCccccC-C-chhcCCCcceeeecccccc-ccccccccccCcCcccCcccccccccceeecccccccc
Q 009534          380 HGFFSLHKVSIWGSKLRHV-T-WLILAPNLKLIQMYDCRCL-EEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLR  456 (532)
Q Consensus       380 ~~l~~L~~L~l~~c~L~~l-~-~l~~l~~L~~L~l~~c~~l-~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~  456 (532)
                      ..+++|++|++++|.+... | .+..+++|+.|++++|.-. ..++.             .+..+++|+.|++++|. +.
T Consensus       418 ~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~p~-------------~~~~l~~L~~L~l~~n~-l~  483 (570)
T 2z63_A          418 LSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD-------------IFTELRNLTFLDLSQCQ-LE  483 (570)
T ss_dssp             TTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECTTCEEGGGEECS-------------CCTTCTTCCEEECTTSC-CC
T ss_pred             hcCCCCCEEeCcCCcccccchhhhhcCCcCcEEECcCCcCccccchh-------------hhhcccCCCEEECCCCc-cc
Confidence            4577788888887755553 2 2667788888888777633 13443             77889999999999874 55


Q ss_pred             cc-CCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEe
Q 009534          457 SI-YPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIK  497 (532)
Q Consensus       457 ~i-~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~  497 (532)
                      .+ |.....+++|+.|++++| ++..+|......+++|+..+
T Consensus       484 ~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~  524 (570)
T 2z63_A          484 QLSPTAFNSLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIW  524 (570)
T ss_dssp             EECTTTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEE
T ss_pred             cCChhhhhcccCCCEEeCCCC-cCCCCCHHHhhcccCCcEEE
Confidence            55 556778999999999998 67777654333335555554

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=98.92  E-value=2.9e-09  Score=105.08  Aligned_cols=195  Identities=13%  Similarity=0.039  Sum_probs=106.7

Q ss_pred             chhhhcCCccCceeeEEe-ccchhHHHhhcCCcccccccCCCeEEEecCCCCC-ccccccccccccccceeeccccCcce
Q 009534          286 LVEELLGLKHLNVLTITL-HSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLS-SLSVLTLASLRHLEALDMRYCKDLEE  363 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~-~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~-~l~~~~l~~l~~L~~L~i~~c~~L~~  363 (532)
                      ....+..+++|+.|+++- ....  ..++   .....+++|++|+++++. +. .+|. .+..+++|++|+++++.-...
T Consensus        68 ~~~~l~~l~~L~~L~L~~~n~l~--~~~p---~~l~~l~~L~~L~Ls~n~-l~~~~p~-~~~~l~~L~~L~Ls~N~l~~~  140 (313)
T 1ogq_A           68 IPSSLANLPYLNFLYIGGINNLV--GPIP---PAIAKLTQLHYLYITHTN-VSGAIPD-FLSQIKTLVTLDFSYNALSGT  140 (313)
T ss_dssp             CCGGGGGCTTCSEEEEEEETTEE--SCCC---GGGGGCTTCSEEEEEEEC-CEEECCG-GGGGCTTCCEEECCSSEEESC
T ss_pred             cChhHhCCCCCCeeeCCCCCccc--ccCC---hhHhcCCCCCEEECcCCe-eCCcCCH-HHhCCCCCCEEeCCCCccCCc
Confidence            345667788888888541 1111  1121   122345668888888765 44 4444 377778888888877632222


Q ss_pred             eeecccCCccccccccCCCCCccEEEEeCCccc-cCCc-hhcCC-CcceeeeccccccccccccccccC----------c
Q 009534          364 MEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLR-HVTW-LILAP-NLKLIQMYDCRCLEEIISLEKLGE----------V  430 (532)
Q Consensus       364 l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~-~l~~-l~~l~-~L~~L~l~~c~~l~~i~~~~~~~~----------~  430 (532)
                      +|...           ..+++|++|++++|.+. .+|. +..++ +|+.|+++++.-...++.......          .
T Consensus       141 ~p~~~-----------~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~L~~L~Ls~N~l  209 (313)
T 1ogq_A          141 LPPSI-----------SSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNML  209 (313)
T ss_dssp             CCGGG-----------GGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEE
T ss_pred             CChHH-----------hcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCCcccEEECcCCcc
Confidence            33222           24666777777666555 3443 55555 666666665432212221100000          0


Q ss_pred             CcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecch
Q 009534          431 PSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       431 ~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~  500 (532)
                      ....+..+..+++|+.|+++++. +...+.....+++|++|++++|.--..+|...... +.|+..+...
T Consensus       210 ~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l-~~L~~L~Ls~  277 (313)
T 1ogq_A          210 EGDASVLFGSDKNTQKIHLAKNS-LAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQL-KFLHSLNVSF  277 (313)
T ss_dssp             EECCGGGCCTTSCCSEEECCSSE-ECCBGGGCCCCTTCCEEECCSSCCEECCCGGGGGC-TTCCEEECCS
T ss_pred             cCcCCHHHhcCCCCCEEECCCCc-eeeecCcccccCCCCEEECcCCcccCcCChHHhcC-cCCCEEECcC
Confidence            00012356677888888888764 33333335667888888888886555677654443 5555555443

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=98.92  E-value=1.2e-09  Score=107.51  Aligned_cols=179  Identities=14%  Similarity=0.110  Sum_probs=110.0

Q ss_pred             cCCccCceeeEEeccchhHH-HhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcce--eeec
Q 009534          291 LGLKHLNVLTITLHSFAALQ-RLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEE--MEID  367 (532)
Q Consensus       291 ~~L~~L~~L~i~~~~~~~l~-~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~--l~~~  367 (532)
                      ..+++|+.|+++-....... .+... ... .+++|++|+++++. +..++...+..+++|++|+++++.-...  ++..
T Consensus       114 ~~~~~L~~L~Ls~n~i~~~~~~~~~~-~~~-~~~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~  190 (310)
T 4glp_A          114 ATGLALSSLRLRNVSWATGRSWLAEL-QQW-LKPGLKVLSIAQAH-SPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAA  190 (310)
T ss_dssp             CCCBCCSSCEEESCCCSSTTSSHHHH-HTT-BCSCCCEEEEECCS-SCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTT
T ss_pred             ccCCCCCEEEeecccccchhhhhHHH-Hhh-hccCCCEEEeeCCC-cchhhHHHhccCCCCCEEECCCCCCccchhhhHH
Confidence            56777888886533222100 00000 001 24668888888865 6666666677888888888888743321  2211


Q ss_pred             ccCCccccccccCCCCCccEEEEeCCccccCCc-----hhcCCCcceeeeccccccccc-cccccccCcCcccCcccccc
Q 009534          368 YAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-----LILAPNLKLIQMYDCRCLEEI-ISLEKLGEVPSEEMQNLIPF  441 (532)
Q Consensus       368 ~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-----l~~l~~L~~L~l~~c~~l~~i-~~~~~~~~~~~~~~~~~~~~  441 (532)
                      ..         ...+++|++|++++|+++.++.     +..+++|++|+++++. +..+ +.             .+..+
T Consensus       191 ~~---------~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L~~L~Ls~N~-l~~~~p~-------------~~~~~  247 (310)
T 4glp_A          191 LC---------PHKFPAIQNLALRNTGMETPTGVCAALAAAGVQPHSLDLSHNS-LRATVNP-------------SAPRC  247 (310)
T ss_dssp             SC---------TTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCCSSEECTTSC-CCCCCCS-------------CCSSC
T ss_pred             Hh---------hhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCCCEEECCCCC-CCccchh-------------hHHhc
Confidence            11         1257888888888887776554     3567888888888765 4444 33             33333


Q ss_pred             ---cccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecchh
Q 009534          442 ---ARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEE  501 (532)
Q Consensus       442 ---~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~  501 (532)
                         ++|++|+++++ .++.+|....  ++|+.|++++| +++.+|. .. .++.|+..+...+
T Consensus       248 ~~~~~L~~L~Ls~N-~l~~lp~~~~--~~L~~L~Ls~N-~l~~~~~-~~-~l~~L~~L~L~~N  304 (310)
T 4glp_A          248 MWSSALNSLNLSFA-GLEQVPKGLP--AKLRVLDLSSN-RLNRAPQ-PD-ELPEVDNLTLDGN  304 (310)
T ss_dssp             CCCTTCCCEECCSS-CCCSCCSCCC--SCCSCEECCSC-CCCSCCC-TT-SCCCCSCEECSST
T ss_pred             cCcCcCCEEECCCC-CCCchhhhhc--CCCCEEECCCC-cCCCCch-hh-hCCCccEEECcCC
Confidence               78889998875 5677776553  78899998886 5666665 22 2355555555443

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=98.91  E-value=5.5e-09  Score=112.72  Aligned_cols=170  Identities=13%  Similarity=0.057  Sum_probs=79.7

Q ss_pred             hcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeeccc
Q 009534          290 LLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYA  369 (532)
Q Consensus       290 l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~  369 (532)
                      +..+++|+.|+++  .+ .+..++..   ...+++|++|+++++. +..++...+..+++|+.|+++++.....++....
T Consensus       274 ~~~l~~L~~L~l~--~n-~l~~lp~~---l~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~  346 (606)
T 3t6q_A          274 FHCFSGLQELDLT--AT-HLSELPSG---LVGLSTLKKLVLSANK-FENLCQISASNFPSLTHLSIKGNTKRLELGTGCL  346 (606)
T ss_dssp             TTTCTTCSEEECT--TS-CCSCCCSS---CCSCTTCCEEECTTCC-CSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTT
T ss_pred             hccccCCCEEecc--CC-ccCCCChh---hcccccCCEEECccCC-cCcCchhhhhccCcCCEEECCCCCcccccchhhh
Confidence            5566777777733  33 12233322   2234557777777754 5555444466667777777766643333333322


Q ss_pred             CCccccccccCCCCCccEEEEeCCccccCC----chhcCCCcceeeecccccccccccccccc------------CcCcc
Q 009534          370 GGEVKRIRETHGFFSLHKVSIWGSKLRHVT----WLILAPNLKLIQMYDCRCLEEIISLEKLG------------EVPSE  433 (532)
Q Consensus       370 ~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~----~l~~l~~L~~L~l~~c~~l~~i~~~~~~~------------~~~~~  433 (532)
                      .          .+++|++|++++|.+..++    .+..+++|++|++++|. +..++...-..            .....
T Consensus       347 ~----------~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~  415 (606)
T 3t6q_A          347 E----------NLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNE-PLSLKTEAFKECPQLELLDLAFTRLKVK  415 (606)
T ss_dssp             T----------TCTTCCEEECCSSCCCEEEESTTTTTTCTTCCEEECCSCS-CEEECTTTTTTCTTCSEEECTTCCEECC
T ss_pred             h----------ccCcCCEEECCCCccccccCcchhcccCCCCCEEECCCCc-CCcCCHHHhcCCccCCeEECCCCcCCCc
Confidence            2          3455555555555443321    14445555555554433 22221100000            00000


Q ss_pred             -cCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCC
Q 009534          434 -EMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       434 -~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  477 (532)
                       .+..+..+++|+.|+++++.--...+.....+++|+.|++++|+
T Consensus       416 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~  460 (606)
T 3t6q_A          416 DAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNH  460 (606)
T ss_dssp             TTCCTTTTCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCB
T ss_pred             ccchhhhCcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCC
Confidence             00124556666666666654222223344556666666666664

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.90  E-value=6.9e-09  Score=96.80  Aligned_cols=129  Identities=16%  Similarity=0.276  Sum_probs=96.3

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|+.|+++++ .+..++...+..+++|+.|+++++ .+..+......          .+++|++|++++|.++.+|.  
T Consensus        32 ~~l~~L~l~~n-~i~~i~~~~~~~l~~L~~L~Ls~N-~i~~~~~~~~~----------~l~~L~~L~Ls~N~l~~l~~~~   99 (220)
T 2v9t_B           32 ETITEIRLEQN-TIKVIPPGAFSPYKKLRRIDLSNN-QISELAPDAFQ----------GLRSLNSLVLYGNKITELPKSL   99 (220)
T ss_dssp             TTCCEEECCSS-CCCEECTTSSTTCTTCCEEECCSS-CCCEECTTTTT----------TCSSCCEEECCSSCCCCCCTTT
T ss_pred             cCCCEEECCCC-cCCCcCHhHhhCCCCCCEEECCCC-cCCCcCHHHhh----------CCcCCCEEECCCCcCCccCHhH
Confidence            35888998885 478887766888889999999886 56656444433          68889999999888888775  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC-CcCCCCccEEeecCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR-ALPFPHLKELHVTLCP  477 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~  477 (532)
                      +..+++|+.|+++++. +..++.            ..+..+++|+.|+++++ .++.++.. ...+++|+.|++.+.+
T Consensus       100 f~~l~~L~~L~L~~N~-l~~~~~------------~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B          100 FEGLFSLQLLLLNANK-INCLRV------------DAFQDLHNLNLLSLYDN-KLQTIAKGTFSPLRAIQTMHLAQNP  163 (220)
T ss_dssp             TTTCTTCCEEECCSSC-CCCCCT------------TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ccCCCCCCEEECCCCC-CCEeCH------------HHcCCCCCCCEEECCCC-cCCEECHHHHhCCCCCCEEEeCCCC
Confidence            5778899999997754 555543            26777889999999885 46677653 5568888888887753

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=98.90  E-value=2.3e-09  Score=106.02  Aligned_cols=132  Identities=13%  Similarity=0.094  Sum_probs=87.8

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL  401 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l  401 (532)
                      +++|++|+++++. +..++...+..+++|+.|+++++ .+..++.....         ..+++|++|++++|.++.++..
T Consensus       119 ~~~L~~L~l~~N~-l~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~---------~~l~~L~~L~L~~N~l~~~~~~  187 (317)
T 3o53_A          119 GQGKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAELA---------ASSDTLEHLNLQYNFIYDVKGQ  187 (317)
T ss_dssp             CSSCEEEECCSSC-CCSGGGBCTGGGSSEEEEECTTS-CCCEEEGGGGG---------GGTTTCCEEECTTSCCCEEECC
T ss_pred             cCCCCEEECCCCC-CCCccchhhhccCCCCEEECCCC-CCCcccHHHHh---------hccCcCCEEECCCCcCcccccc
Confidence            3445566665543 45554444566667777777765 34444332211         2467888888888877777666


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCC
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKL  479 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L  479 (532)
                      ..+++|++|+++++. +..++.             .+..+++|+.|+++++ .++.+|.....+++|+.|++++++-.
T Consensus       188 ~~l~~L~~L~Ls~N~-l~~l~~-------------~~~~l~~L~~L~L~~N-~l~~l~~~~~~l~~L~~L~l~~N~~~  250 (317)
T 3o53_A          188 VVFAKLKTLDLSSNK-LAFMGP-------------EFQSAAGVTWISLRNN-KLVLIEKALRFSQNLEHFDLRGNGFH  250 (317)
T ss_dssp             CCCTTCCEEECCSSC-CCEECG-------------GGGGGTTCSEEECTTS-CCCEECTTCCCCTTCCEEECTTCCCB
T ss_pred             cccccCCEEECCCCc-CCcchh-------------hhcccCcccEEECcCC-cccchhhHhhcCCCCCEEEccCCCcc
Confidence            668888888887764 666655             5667788888888876 57777777777788888888877544

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.90  E-value=1.4e-09  Score=94.80  Aligned_cols=125  Identities=18%  Similarity=0.208  Sum_probs=95.4

Q ss_pred             cCCCeEEEecCCCCC--ccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc-CC
Q 009534          323 SNTPSLSLTNCRSLS--SLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH-VT  399 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~--~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~-l~  399 (532)
                      ++|+.|++++|. +.  .+|. .+..+++|+.|++++| .+..+  ...          ..+++|++|++++|.+.. +|
T Consensus        17 ~~l~~L~l~~n~-l~~~~~~~-~~~~l~~L~~L~l~~n-~l~~~--~~~----------~~l~~L~~L~Ls~n~i~~~~~   81 (149)
T 2je0_A           17 SDVKELVLDNSR-SNEGKLEG-LTDEFEELEFLSTINV-GLTSI--ANL----------PKLNKLKKLELSDNRVSGGLE   81 (149)
T ss_dssp             GGCSEEECTTCB-CBTTBCCS-CCTTCTTCCEEECTTS-CCCCC--TTC----------CCCTTCCEEECCSSCCCSCTH
T ss_pred             ccCeEEEccCCc-CChhHHHH-HHhhcCCCcEEECcCC-CCCCc--hhh----------hcCCCCCEEECCCCcccchHH
Confidence            459999999976 55  6665 3688899999999987 56655  222          368999999999998887 66


Q ss_pred             c-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC----CCcCCCCccEEeec
Q 009534          400 W-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP----RALPFPHLKELHVT  474 (532)
Q Consensus       400 ~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~----~~~~~p~L~~L~i~  474 (532)
                      . +..+++|++|++++|. +..++.           ...+..+++|++|+++++ .+..++.    ....+|+|+.|+++
T Consensus        82 ~~~~~l~~L~~L~ls~N~-i~~~~~-----------~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~~~~l~~L~~L~l~  148 (149)
T 2je0_A           82 VLAEKCPNLTHLNLSGNK-IKDLST-----------IEPLKKLENLKSLDLFNC-EVTNLNDYRENVFKLLPQLTYLDGY  148 (149)
T ss_dssp             HHHHHCTTCCEEECTTSC-CCSHHH-----------HGGGGGCTTCCEEECTTC-GGGGSTTHHHHHHHHCTTCCEETTB
T ss_pred             HHhhhCCCCCEEECCCCc-CCChHH-----------HHHHhhCCCCCEEeCcCC-cccchHHHHHHHHHHCCCcccccCC
Confidence            5 4569999999998875 666541           126788999999999997 5677765    35668899998876


Q ss_pred             C
Q 009534          475 L  475 (532)
Q Consensus       475 ~  475 (532)
                      +
T Consensus       149 d  149 (149)
T 2je0_A          149 D  149 (149)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=98.89  E-value=2.3e-10  Score=113.93  Aligned_cols=129  Identities=24%  Similarity=0.377  Sum_probs=63.7

Q ss_pred             cCCCeEEEecCCCCCc--cccccccccccccceeeccccCcce--eeecccCCccccccccCCCC-CccEEEEeCC--cc
Q 009534          323 SNTPSLSLTNCRSLSS--LSVLTLASLRHLEALDMRYCKDLEE--MEIDYAGGEVKRIRETHGFF-SLHKVSIWGS--KL  395 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~--l~~~~l~~l~~L~~L~i~~c~~L~~--l~~~~~~~~~~~~~~~~~l~-~L~~L~l~~c--~L  395 (532)
                      ++|++|++++|..++.  ++.. +..+++|+.|++++|..+..  ++...           ..++ +|++|++++|  .+
T Consensus       142 ~~L~~L~L~~~~~l~~~~l~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~-----------~~l~~~L~~L~l~~~~~~~  209 (336)
T 2ast_B          142 SNLVRLNLSGCSGFSEFALQTL-LSSCSRLDELNLSWCFDFTEKHVQVAV-----------AHVSETITQLNLSGYRKNL  209 (336)
T ss_dssp             TTCSEEECTTCBSCCHHHHHHH-HHHCTTCCEEECCCCTTCCHHHHHHHH-----------HHSCTTCCEEECCSCGGGS
T ss_pred             CCCCEEECCCCCCCCHHHHHHH-HhcCCCCCEEcCCCCCCcChHHHHHHH-----------HhcccCCCEEEeCCCcccC
Confidence            4455555555544442  2221 34455555555555533332  11111           1355 6666666666  23


Q ss_pred             cc--CCc-hhcCCCcceeeecccccccc-ccccccccCcCcccCcccccccccceeeccccccccccCC-CCcCCCCccE
Q 009534          396 RH--VTW-LILAPNLKLIQMYDCRCLEE-IISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP-RALPFPHLKE  470 (532)
Q Consensus       396 ~~--l~~-l~~l~~L~~L~l~~c~~l~~-i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~L~~  470 (532)
                      +.  ++. +..+++|+.|++++|..+.. .+.             .+..+++|++|++.+|..+..... ....+|+|+.
T Consensus       210 ~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~-------------~l~~l~~L~~L~l~~~~~~~~~~~~~l~~~~~L~~  276 (336)
T 2ast_B          210 QKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQ-------------EFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKT  276 (336)
T ss_dssp             CHHHHHHHHHHCTTCSEEECTTCTTCCGGGGG-------------GGGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCE
T ss_pred             CHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHH-------------HHhCCCCCCEeeCCCCCCCCHHHHHHHhcCCCCCE
Confidence            21  222 44566666666666553332 222             455567777777776653322111 2345667777


Q ss_pred             EeecCC
Q 009534          471 LHVTLC  476 (532)
Q Consensus       471 L~i~~C  476 (532)
                      |++++|
T Consensus       277 L~l~~~  282 (336)
T 2ast_B          277 LQVFGI  282 (336)
T ss_dssp             EECTTS
T ss_pred             EeccCc
Confidence            777766

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=98.89  E-value=5.6e-10  Score=111.11  Aligned_cols=160  Identities=18%  Similarity=0.219  Sum_probs=111.6

Q ss_pred             hcCCccCceeeEEeccchhHHH-hhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcce--eee
Q 009534          290 LLGLKHLNVLTITLHSFAALQR-LLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEE--MEI  366 (532)
Q Consensus       290 l~~L~~L~~L~i~~~~~~~l~~-l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~--l~~  366 (532)
                      +..+++|+.|+++  .+..... ++.   ....+++|++|++++|. +.......+..+++|++|++++|..+..  ++.
T Consensus        89 ~~~~~~L~~L~L~--~~~l~~~~~~~---~~~~~~~L~~L~L~~~~-l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~  162 (336)
T 2ast_B           89 HFSPFRVQHMDLS--NSVIEVSTLHG---ILSQCSKLQNLSLEGLR-LSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQT  162 (336)
T ss_dssp             CCCCBCCCEEECT--TCEECHHHHHH---HHTTBCCCSEEECTTCB-CCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHH
T ss_pred             hccCCCCCEEEcc--CCCcCHHHHHH---HHhhCCCCCEEeCcCcc-cCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHH
Confidence            4567889999844  4421111 222   12235779999999985 5543333477789999999999866663  222


Q ss_pred             cccCCccccccccCCCCCccEEEEeCC-cccc--CCc-hhcCC-Ccceeeecccc-ccc--cccccccccCcCcccCccc
Q 009534          367 DYAGGEVKRIRETHGFFSLHKVSIWGS-KLRH--VTW-LILAP-NLKLIQMYDCR-CLE--EIISLEKLGEVPSEEMQNL  438 (532)
Q Consensus       367 ~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~--l~~-l~~l~-~L~~L~l~~c~-~l~--~i~~~~~~~~~~~~~~~~~  438 (532)
                      ..           ..+++|++|++++| .++.  ++. +..++ +|++|++++|. .+.  .++.             .+
T Consensus       163 ~~-----------~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~L~l~~~~~~~~~~~l~~-------------~~  218 (336)
T 2ast_B          163 LL-----------SSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLST-------------LV  218 (336)
T ss_dssp             HH-----------HHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSCHHHHHH-------------HH
T ss_pred             HH-----------hcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCEEEeCCCcccCCHHHHHH-------------HH
Confidence            12           25889999999999 8886  333 77889 99999999886 342  3333             55


Q ss_pred             ccccccceeecccccccc-ccCCCCcCCCCccEEeecCCCCC
Q 009534          439 IPFARLERLSLGGLENLR-SIYPRALPFPHLKELHVTLCPKL  479 (532)
Q Consensus       439 ~~~~~L~~L~l~~~~~L~-~i~~~~~~~p~L~~L~i~~C~~L  479 (532)
                      ..+++|++|++++|..++ ..+..+..+++|+.|++++|..+
T Consensus       219 ~~~~~L~~L~l~~~~~l~~~~~~~l~~l~~L~~L~l~~~~~~  260 (336)
T 2ast_B          219 RRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDI  260 (336)
T ss_dssp             HHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTC
T ss_pred             hhCCCCCEEeCCCCCcCCHHHHHHHhCCCCCCEeeCCCCCCC
Confidence            678999999999987654 33445677899999999999744

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=98.89  E-value=5.1e-09  Score=108.91  Aligned_cols=83  Identities=12%  Similarity=0.098  Sum_probs=46.2

Q ss_pred             CCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC
Q 009534          382 FFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR  461 (532)
Q Consensus       382 l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~  461 (532)
                      +++|++|++++|.++.++ ++.+++|+.|++++|..+..+               .+..+++|+.|+++++ +++.+|  
T Consensus       126 l~~L~~L~l~~N~l~~l~-l~~l~~L~~L~l~~n~~~~~~---------------~~~~l~~L~~L~ls~n-~l~~l~--  186 (457)
T 3bz5_A          126 NPLLTYLNCARNTLTEID-VSHNTQLTELDCHLNKKITKL---------------DVTPQTQLTTLDCSFN-KITELD--  186 (457)
T ss_dssp             CTTCCEEECTTSCCSCCC-CTTCTTCCEEECTTCSCCCCC---------------CCTTCTTCCEEECCSS-CCCCCC--
T ss_pred             CCcCCEEECCCCccceec-cccCCcCCEEECCCCCccccc---------------ccccCCcCCEEECCCC-ccceec--
Confidence            445555555555444443 444555555555544433333               3445677777777765 466665  


Q ss_pred             CcCCCCccEEeecCCCCCCCCCC
Q 009534          462 ALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       462 ~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      ...+++|+.|++++| +++.+++
T Consensus       187 l~~l~~L~~L~l~~N-~l~~~~l  208 (457)
T 3bz5_A          187 VSQNKLLNRLNCDTN-NITKLDL  208 (457)
T ss_dssp             CTTCTTCCEEECCSS-CCSCCCC
T ss_pred             cccCCCCCEEECcCC-cCCeecc
Confidence            556777777777765 3444443

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=98.89  E-value=2.8e-09  Score=105.17  Aligned_cols=178  Identities=16%  Similarity=0.097  Sum_probs=100.9

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCC-ccccccccccccccceeeccccCccee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLS-SLSVLTLASLRHLEALDMRYCKDLEEM  364 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~-~l~~~~l~~l~~L~~L~i~~c~~L~~l  364 (532)
                      ....+..+++|++|+++-....  ..++   .....+++|++|+++++. +. .+|.. +..+++|++|+++++.--..+
T Consensus        93 ~p~~l~~l~~L~~L~Ls~n~l~--~~~p---~~~~~l~~L~~L~Ls~N~-l~~~~p~~-~~~l~~L~~L~L~~N~l~~~~  165 (313)
T 1ogq_A           93 IPPAIAKLTQLHYLYITHTNVS--GAIP---DFLSQIKTLVTLDFSYNA-LSGTLPPS-ISSLPNLVGITFDGNRISGAI  165 (313)
T ss_dssp             CCGGGGGCTTCSEEEEEEECCE--EECC---GGGGGCTTCCEEECCSSE-EESCCCGG-GGGCTTCCEEECCSSCCEEEC
T ss_pred             CChhHhcCCCCCEEECcCCeeC--CcCC---HHHhCCCCCCEEeCCCCc-cCCcCChH-HhcCCCCCeEECcCCcccCcC
Confidence            4445666777777775422221  1111   112234557777776654 33 34432 566666777766665322123


Q ss_pred             eecccCC--------------ccccccccCCCCCccEEEEeCCccccCC--chhcCCCcceeeecccccccccccccccc
Q 009534          365 EIDYAGG--------------EVKRIRETHGFFSLHKVSIWGSKLRHVT--WLILAPNLKLIQMYDCRCLEEIISLEKLG  428 (532)
Q Consensus       365 ~~~~~~~--------------~~~~~~~~~~l~~L~~L~l~~c~L~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~  428 (532)
                      |......              ++..+.....++ |++|++++|.+...+  .+..+++|+.|+++++. +...+.     
T Consensus       166 p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~-----  238 (313)
T 1ogq_A          166 PDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNS-LAFDLG-----  238 (313)
T ss_dssp             CGGGGCCCTTCCEEECCSSEEEEECCGGGGGCC-CSEEECCSSEEEECCGGGCCTTSCCSEEECCSSE-ECCBGG-----
T ss_pred             CHHHhhhhhcCcEEECcCCeeeccCChHHhCCc-ccEEECcCCcccCcCCHHHhcCCCCCEEECCCCc-eeeecC-----
Confidence            3222110              000111112233 666666666554422  15567777777776654 333333     


Q ss_pred             CcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCC
Q 009534          429 EVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFD  485 (532)
Q Consensus       429 ~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~  485 (532)
                              .+..+++|++|+++++.--..+|..+..+++|+.|++++|+--..+|..
T Consensus       239 --------~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~ip~~  287 (313)
T 1ogq_A          239 --------KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG  287 (313)
T ss_dssp             --------GCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEEECCCS
T ss_pred             --------cccccCCCCEEECcCCcccCcCChHHhcCcCCCEEECcCCcccccCCCC
Confidence                    4667899999999997644477777888999999999999765578875

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=98.88  E-value=4.9e-09  Score=105.13  Aligned_cols=190  Identities=14%  Similarity=0.108  Sum_probs=122.4

Q ss_pred             hhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeec
Q 009534          288 EELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEID  367 (532)
Q Consensus       288 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~  367 (532)
                      +.+.++++|+.|+++  .+...+.++..  ....++++..+.+.+++.+..++...+..+++|++|++.++ .+..++..
T Consensus        48 ~~f~~l~~L~~L~Ls--~N~i~~~i~~~--~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~l~~n-~l~~~~~~  122 (350)
T 4ay9_X           48 GAFSGFGDLEKIEIS--QNDVLEVIEAD--VFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT-GIKHLPDV  122 (350)
T ss_dssp             TSSTTCTTCCEEEEE--CCTTCCEECTT--SBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCEEEEEEE-CCSSCCCC
T ss_pred             HHHcCCCCCCEEECc--CCCCCCccChh--HhhcchhhhhhhcccCCcccccCchhhhhcccccccccccc-ccccCCch
Confidence            346788899999955  33222222211  11223556666666666777776666777778888877765 33333321


Q ss_pred             ccCCc---------------cccccccCCC-CCccEEEEeCCccccCCc-hhcCCCcceeeeccccccccccccccccCc
Q 009534          368 YAGGE---------------VKRIRETHGF-FSLHKVSIWGSKLRHVTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEV  430 (532)
Q Consensus       368 ~~~~~---------------~~~~~~~~~l-~~L~~L~l~~c~L~~l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~  430 (532)
                      .....               .........+ ..|+.|++++|+++.++. ....++|+.|.+.++..++.++.       
T Consensus       123 ~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~~f~~~~L~~l~l~~~n~l~~i~~-------  195 (350)
T 4ay9_X          123 HKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPN-------  195 (350)
T ss_dssp             TTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTSSTTEEEEEEECTTCTTCCCCCT-------
T ss_pred             hhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCChhhccccchhHHhhccCCcccCCCH-------
Confidence            11100               0000111123 357778888887777664 34566788888888888888875       


Q ss_pred             CcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecc
Q 009534          431 PSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       431 ~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                           ..+..+++|+.|+++++ +++.+|.  ..+..|+.|.+.+|.+++.+|. .. .+.+|+.....
T Consensus       196 -----~~f~~l~~L~~LdLs~N-~l~~lp~--~~~~~L~~L~~l~~~~l~~lP~-l~-~l~~L~~l~l~  254 (350)
T 4ay9_X          196 -----DVFHGASGPVILDISRT-RIHSLPS--YGLENLKKLRARSTYNLKKLPT-LE-KLVALMEASLT  254 (350)
T ss_dssp             -----TTTTTEECCSEEECTTS-CCCCCCS--SSCTTCCEEECTTCTTCCCCCC-TT-TCCSCCEEECS
T ss_pred             -----HHhccCcccchhhcCCC-CcCccCh--hhhccchHhhhccCCCcCcCCC-ch-hCcChhhCcCC
Confidence                 35788999999999986 6899986  3478999999999999999995 22 24666666544

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=98.88  E-value=3.8e-09  Score=112.52  Aligned_cols=129  Identities=19%  Similarity=0.274  Sum_probs=75.7

Q ss_pred             cCCCeEEEecCCCCCcccc--ccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc
Q 009534          323 SNTPSLSLTNCRSLSSLSV--LTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~--~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~  400 (532)
                      ++|+.|++++|. ++.++.  ..+..+++|+.|++++| .++.+|....           .+++|++|++++|.++.+|.
T Consensus       361 ~~L~~L~Ls~N~-l~~~~~~~~~~~~l~~L~~L~Ls~N-~l~~lp~~~~-----------~~~~L~~L~Ls~N~l~~l~~  427 (549)
T 2z81_A          361 PSLQTLVLSQNH-LRSMQKTGEILLTLKNLTSLDISRN-TFHPMPDSCQ-----------WPEKMRFLNLSSTGIRVVKT  427 (549)
T ss_dssp             TTCCEEECTTSC-CCCHHHHHHHGGGCTTCCEEECTTC-CCCCCCSCCC-----------CCTTCCEEECTTSCCSCCCT
T ss_pred             ccCcEEEccCCc-ccccccchhhhhcCCCCCEEECCCC-CCccCChhhc-----------ccccccEEECCCCCcccccc
Confidence            446666666543 444432  22455556666666655 3444443221           35566666666665555442


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLK  480 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~  480 (532)
                       ...++|+.|++++|. +..+                ...+++|++|+++++ +++.+|. ...+++|+.|++++| +++
T Consensus       428 -~~~~~L~~L~Ls~N~-l~~~----------------~~~l~~L~~L~Ls~N-~l~~ip~-~~~l~~L~~L~Ls~N-~l~  486 (549)
T 2z81_A          428 -CIPQTLEVLDVSNNN-LDSF----------------SLFLPRLQELYISRN-KLKTLPD-ASLFPVLLVMKISRN-QLK  486 (549)
T ss_dssp             -TSCTTCSEEECCSSC-CSCC----------------CCCCTTCCEEECCSS-CCSSCCC-GGGCTTCCEEECCSS-CCC
T ss_pred             -hhcCCceEEECCCCC-hhhh----------------cccCChhcEEECCCC-ccCcCCC-cccCccCCEEecCCC-ccC
Confidence             112456666665542 2222                235789999999987 6778876 456899999999987 566


Q ss_pred             CCCCC
Q 009534          481 KLPFD  485 (532)
Q Consensus       481 ~lp~~  485 (532)
                      .+|..
T Consensus       487 ~~~~~  491 (549)
T 2z81_A          487 SVPDG  491 (549)
T ss_dssp             CCCTT
T ss_pred             CcCHH
Confidence            66543

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=98.85  E-value=1e-08  Score=106.62  Aligned_cols=97  Identities=12%  Similarity=0.070  Sum_probs=69.7

Q ss_pred             cCCCCCccEEEEeCC-ccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccc
Q 009534          379 THGFFSLHKVSIWGS-KLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRS  457 (532)
Q Consensus       379 ~~~l~~L~~L~l~~c-~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~  457 (532)
                      ...+++|++|++++| .+..++ +..+++|+.|++++|. +..+               .+..+++|+.|++.++ +++.
T Consensus       144 l~~l~~L~~L~l~~n~~~~~~~-~~~l~~L~~L~ls~n~-l~~l---------------~l~~l~~L~~L~l~~N-~l~~  205 (457)
T 3bz5_A          144 VSHNTQLTELDCHLNKKITKLD-VTPQTQLTTLDCSFNK-ITEL---------------DVSQNKLLNRLNCDTN-NITK  205 (457)
T ss_dssp             CTTCTTCCEEECTTCSCCCCCC-CTTCTTCCEEECCSSC-CCCC---------------CCTTCTTCCEEECCSS-CCSC
T ss_pred             cccCCcCCEEECCCCCcccccc-cccCCcCCEEECCCCc-ccee---------------ccccCCCCCEEECcCC-cCCe
Confidence            346788999999999 777774 7788999999998764 5554               2456788999999876 4666


Q ss_pred             cCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecc
Q 009534          458 IYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       458 i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      ++  ...+++|+.|++++| ++..+|...   +..|+..+..
T Consensus       206 ~~--l~~l~~L~~L~Ls~N-~l~~ip~~~---l~~L~~L~l~  241 (457)
T 3bz5_A          206 LD--LNQNIQLTFLDCSSN-KLTEIDVTP---LTQLTYFDCS  241 (457)
T ss_dssp             CC--CTTCTTCSEEECCSS-CCSCCCCTT---CTTCSEEECC
T ss_pred             ec--cccCCCCCEEECcCC-cccccCccc---cCCCCEEEee
Confidence            63  667889999999887 566777432   2444444444

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.85  E-value=1.6e-08  Score=94.22  Aligned_cols=128  Identities=16%  Similarity=0.209  Sum_probs=91.3

Q ss_pred             CCCeEEEecCCCCCccc-cccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          324 NTPSLSLTNCRSLSSLS-VLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~-~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      .++.|+++++. +..++ ...+..+++|+.|+++++ .++.++.....          .+++|++|++++|.++.++.  
T Consensus        33 ~~~~L~L~~N~-l~~~~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~----------~l~~L~~L~Ls~N~l~~~~~~~  100 (220)
T 2v70_A           33 YTAELRLNNNE-FTVLEATGIFKKLPQLRKINFSNN-KITDIEEGAFE----------GASGVNEILLTSNRLENVQHKM  100 (220)
T ss_dssp             TCSEEECCSSC-CCEECCCCCGGGCTTCCEEECCSS-CCCEECTTTTT----------TCTTCCEEECCSSCCCCCCGGG
T ss_pred             CCCEEEcCCCc-CCccCchhhhccCCCCCEEECCCC-cCCEECHHHhC----------CCCCCCEEECCCCccCccCHhH
Confidence            37788888854 67663 344677888888888875 46666554433          68888888888888777765  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc-CCCCcCCCCccEEeecCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-YPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~  477 (532)
                      +..+++|++|+++++. +..++.            ..+..+++|+.|+++++ +++.+ |..+..+++|+.|++.+++
T Consensus       101 ~~~l~~L~~L~Ls~N~-l~~~~~------------~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~  164 (220)
T 2v70_A          101 FKGLESLKTLMLRSNR-ITCVGN------------DSFIGLSSVRLLSLYDN-QITTVAPGAFDTLHSLSTLNLLANP  164 (220)
T ss_dssp             GTTCSSCCEEECTTSC-CCCBCT------------TSSTTCTTCSEEECTTS-CCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             hcCCcCCCEEECCCCc-CCeECH------------hHcCCCccCCEEECCCC-cCCEECHHHhcCCCCCCEEEecCcC
Confidence            6778888888887754 555533            26677888888888875 56666 4456668888888887753

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=98.84  E-value=1e-08  Score=101.90  Aligned_cols=173  Identities=15%  Similarity=0.112  Sum_probs=94.3

Q ss_pred             hhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcce--e
Q 009534          287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEE--M  364 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~--l  364 (532)
                      ...+..+++|+.|+++  .+ .+..++...     .++|++|+++++. +..++...+..+++|+.|+++++. ++.  +
T Consensus        95 ~~~~~~l~~L~~L~L~--~n-~l~~l~~~~-----~~~L~~L~l~~n~-i~~~~~~~~~~l~~L~~L~l~~n~-l~~~~~  164 (332)
T 2ft3_A           95 EKAFSPLRKLQKLYIS--KN-HLVEIPPNL-----PSSLVELRIHDNR-IRKVPKGVFSGLRNMNCIEMGGNP-LENSGF  164 (332)
T ss_dssp             GGGSTTCTTCCEEECC--SS-CCCSCCSSC-----CTTCCEEECCSSC-CCCCCSGGGSSCSSCCEEECCSCC-CBGGGS
T ss_pred             HhHhhCcCCCCEEECC--CC-cCCccCccc-----cccCCEEECCCCc-cCccCHhHhCCCccCCEEECCCCc-cccCCC
Confidence            4455666677777643  22 122222211     1447777777753 666665556777777777777653 221  1


Q ss_pred             eecccC---Cc-----c--ccccccCCCCCccEEEEeCCccccCC--chhcCCCcceeeeccccccccccccccccCcCc
Q 009534          365 EIDYAG---GE-----V--KRIRETHGFFSLHKVSIWGSKLRHVT--WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPS  432 (532)
Q Consensus       365 ~~~~~~---~~-----~--~~~~~~~~l~~L~~L~l~~c~L~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~  432 (532)
                      ......   .+     .  ........+++|++|++++|.++.++  .+..+++|+.|+++++. +..++.         
T Consensus       165 ~~~~~~~l~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~-l~~~~~---------  234 (332)
T 2ft3_A          165 EPGAFDGLKLNYLRISEAKLTGIPKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQ-IRMIEN---------  234 (332)
T ss_dssp             CTTSSCSCCCSCCBCCSSBCSSCCSSSCSSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSC-CCCCCT---------
T ss_pred             CcccccCCccCEEECcCCCCCccCccccCCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCc-CCcCCh---------
Confidence            111100   00     0  00000011245666666666555543  25566666666666543 344332         


Q ss_pred             ccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          433 EEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       433 ~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                         ..+..+++|+.|+++++ .+..+|.....+++|+.|+++++ +++.+|.
T Consensus       235 ---~~~~~l~~L~~L~L~~N-~l~~lp~~l~~l~~L~~L~l~~N-~l~~~~~  281 (332)
T 2ft3_A          235 ---GSLSFLPTLRELHLDNN-KLSRVPAGLPDLKLLQVVYLHTN-NITKVGV  281 (332)
T ss_dssp             ---TGGGGCTTCCEEECCSS-CCCBCCTTGGGCTTCCEEECCSS-CCCBCCT
T ss_pred             ---hHhhCCCCCCEEECCCC-cCeecChhhhcCccCCEEECCCC-CCCccCh
Confidence               24666778888888775 56677777777788888888876 4666654

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=98.84  E-value=9.1e-09  Score=114.28  Aligned_cols=88  Identities=10%  Similarity=-0.004  Sum_probs=50.9

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccc-cCCc-
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLR-HVTW-  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~-~l~~-  400 (532)
                      ++|++|++++|.-...+|.. +..+++|+.|++++|.-...+|..           ...+++|++|++++|++. .+|. 
T Consensus       466 ~~L~~L~L~~N~l~~~~p~~-l~~l~~L~~L~L~~N~l~~~~p~~-----------~~~l~~L~~L~L~~N~l~~~~p~~  533 (768)
T 3rgz_A          466 KTLETLILDFNDLTGEIPSG-LSNCTNLNWISLSNNRLTGEIPKW-----------IGRLENLAILKLSNNSFSGNIPAE  533 (768)
T ss_dssp             TTCCEEECCSSCCCSCCCGG-GGGCTTCCEEECCSSCCCSCCCGG-----------GGGCTTCCEEECCSSCCEEECCGG
T ss_pred             CCceEEEecCCcccCcCCHH-HhcCCCCCEEEccCCccCCcCChH-----------HhcCCCCCEEECCCCcccCcCCHH
Confidence            44555555554422233322 455555555555555322223322           235888888888888665 3554 


Q ss_pred             hhcCCCcceeeecccccccccc
Q 009534          401 LILAPNLKLIQMYDCRCLEEII  422 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~  422 (532)
                      +..+++|+.|++++|.-...+|
T Consensus       534 l~~l~~L~~L~Ls~N~l~g~ip  555 (768)
T 3rgz_A          534 LGDCRSLIWLDLNTNLFNGTIP  555 (768)
T ss_dssp             GGGCTTCCEEECCSSEEESBCC
T ss_pred             HcCCCCCCEEECCCCccCCcCC
Confidence            7788888888888776443443

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=98.84  E-value=9.3e-09  Score=107.29  Aligned_cols=86  Identities=14%  Similarity=0.207  Sum_probs=50.6

Q ss_pred             CCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC
Q 009534          381 GFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP  460 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~  460 (532)
                      .+++|++|++++|.+..++.+..+++|+.|++++|. +..++              .+..+++|+.|++.+| .+..++ 
T Consensus       285 ~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~L~~n~-l~~~~--------------~~~~l~~L~~L~l~~n-~l~~~~-  347 (466)
T 1o6v_A          285 GLTALTNLELNENQLEDISPISNLKNLTYLTLYFNN-ISDIS--------------PVSSLTKLQRLFFYNN-KVSDVS-  347 (466)
T ss_dssp             TCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSC-CSCCG--------------GGGGCTTCCEEECCSS-CCCCCG-
T ss_pred             CCCccCeEEcCCCcccCchhhcCCCCCCEEECcCCc-CCCch--------------hhccCccCCEeECCCC-ccCCch-
Confidence            466666676666666666556666677777776653 33332              2345666777777665 344443 


Q ss_pred             CCcCCCCccEEeecCCCCCCCCC
Q 009534          461 RALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       461 ~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      ....+++|+.|++++|+--...|
T Consensus       348 ~l~~l~~L~~L~l~~n~l~~~~~  370 (466)
T 1o6v_A          348 SLANLTNINWLSAGHNQISDLTP  370 (466)
T ss_dssp             GGTTCTTCCEEECCSSCCCBCGG
T ss_pred             hhccCCCCCEEeCCCCccCccch
Confidence            34556667777776665433334

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.84  E-value=5.2e-09  Score=100.50  Aligned_cols=148  Identities=21%  Similarity=0.233  Sum_probs=107.6

Q ss_pred             hhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecc
Q 009534          289 ELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       289 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      .+..+++|+.|+++  ++ .+..++    ....+++|+.|+++++. +..++.  +..+++|+.|+++++ .++.++.  
T Consensus        36 ~~~~l~~L~~L~l~--~n-~i~~l~----~l~~l~~L~~L~L~~N~-i~~~~~--l~~l~~L~~L~L~~N-~l~~l~~--  102 (263)
T 1xeu_A           36 SQKELSGVQNFNGD--NS-NIQSLA----GMQFFTNLKELHLSHNQ-ISDLSP--LKDLTKLEELSVNRN-RLKNLNG--  102 (263)
T ss_dssp             CHHHHTTCSEEECT--TS-CCCCCT----TGGGCTTCCEEECCSSC-CCCCGG--GTTCSSCCEEECCSS-CCSCCTT--
T ss_pred             chhhcCcCcEEECc--CC-Ccccch----HHhhCCCCCEEECCCCc-cCCChh--hccCCCCCEEECCCC-ccCCcCc--
Confidence            34556778888743  33 222232    12235779999999864 777765  788899999999887 4554432  


Q ss_pred             cCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceee
Q 009534          369 AGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLS  448 (532)
Q Consensus       369 ~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~  448 (532)
                      ..          . ++|++|++++|.++.++.+..+++|+.|+++++. +..++              .+..+++|+.|+
T Consensus       103 ~~----------~-~~L~~L~L~~N~l~~~~~l~~l~~L~~L~Ls~N~-i~~~~--------------~l~~l~~L~~L~  156 (263)
T 1xeu_A          103 IP----------S-ACLSRLFLDNNELRDTDSLIHLKNLEILSIRNNK-LKSIV--------------MLGFLSKLEVLD  156 (263)
T ss_dssp             CC----------C-SSCCEEECCSSCCSBSGGGTTCTTCCEEECTTSC-CCBCG--------------GGGGCTTCCEEE
T ss_pred             cc----------c-CcccEEEccCCccCCChhhcCcccccEEECCCCc-CCCCh--------------HHccCCCCCEEE
Confidence            11          2 8899999999988888888899999999998764 55552              466789999999


Q ss_pred             ccccccccccCCCCcCCCCccEEeecCCC
Q 009534          449 LGGLENLRSIYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       449 l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  477 (532)
                      ++++ .+..+ .....+++|+.|++++++
T Consensus       157 L~~N-~i~~~-~~l~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          157 LHGN-EITNT-GGLTRLKKVNWIDLTGQK  183 (263)
T ss_dssp             CTTS-CCCBC-TTSTTCCCCCEEEEEEEE
T ss_pred             CCCC-cCcch-HHhccCCCCCEEeCCCCc
Confidence            9986 46666 456778999999999875

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=98.84  E-value=4.7e-09  Score=113.24  Aligned_cols=134  Identities=13%  Similarity=0.024  Sum_probs=104.7

Q ss_pred             cccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCC-
Q 009534          321 IVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT-  399 (532)
Q Consensus       321 ~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~-  399 (532)
                      .+++|+.|++++|. +.......+..+++|+.|++++|.-...+......          .+++|++|++++|.++.++ 
T Consensus       422 ~l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~----------~l~~L~~L~Ls~n~l~~~~~  490 (606)
T 3vq2_A          422 SLEKLLYLDISYTN-TKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFA----------NTTNLTFLDLSKCQLEQISW  490 (606)
T ss_dssp             TCTTCCEEECTTSC-CEECCTTTTTTCTTCCEEECTTCEEGGGEECSCCT----------TCTTCCEEECTTSCCCEECT
T ss_pred             ccccCCEEECcCCC-CCccchhhhcCCCCCCEEECCCCcCCCcchHHhhc----------cCCCCCEEECCCCcCCccCh
Confidence            36789999999987 55544445888999999999998543323333322          6899999999999887754 


Q ss_pred             -chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCC-CccEEeecCCC
Q 009534          400 -WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFP-HLKELHVTLCP  477 (532)
Q Consensus       400 -~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p-~L~~L~i~~C~  477 (532)
                       ++..+++|++|++++|. +..+++            ..+..+++|+.|+++++. ++.+|.....+| +|+.|++.++|
T Consensus       491 ~~~~~l~~L~~L~Ls~N~-l~~~~~------------~~~~~l~~L~~L~l~~N~-l~~~p~~~~~l~~~L~~l~l~~N~  556 (606)
T 3vq2_A          491 GVFDTLHRLQLLNMSHNN-LLFLDS------------SHYNQLYSLSTLDCSFNR-IETSKGILQHFPKSLAFFNLTNNS  556 (606)
T ss_dssp             TTTTTCTTCCEEECCSSC-CSCEEG------------GGTTTCTTCCEEECTTSC-CCCEESCGGGSCTTCCEEECCSCC
T ss_pred             hhhcccccCCEEECCCCc-CCCcCH------------HHccCCCcCCEEECCCCc-CcccCHhHhhhcccCcEEEccCCC
Confidence             37889999999999885 555533            278889999999999975 889998877887 59999999875


Q ss_pred             CC
Q 009534          478 KL  479 (532)
Q Consensus       478 ~L  479 (532)
                      -.
T Consensus       557 ~~  558 (606)
T 3vq2_A          557 VA  558 (606)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=98.83  E-value=6.2e-09  Score=112.56  Aligned_cols=126  Identities=16%  Similarity=0.221  Sum_probs=78.4

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hh
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LI  402 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~  402 (532)
                      +++|+|++. .++.++...|.++++|++|++++| .++.++.+...          .+++|++|+|++|+++.+|.  +.
T Consensus        54 ~~~LdLs~N-~i~~l~~~~f~~l~~L~~L~Ls~N-~i~~i~~~~f~----------~L~~L~~L~Ls~N~l~~l~~~~f~  121 (635)
T 4g8a_A           54 TKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQ----------SLSHLSTLILTGNPIQSLALGAFS  121 (635)
T ss_dssp             CCEEECTTS-CCCEECTTTTTTCTTCCEEECTTC-CCCEECTTTTT----------TCTTCCEEECTTCCCCEECGGGGT
T ss_pred             CCEEEeeCC-CCCCCCHHHHhCCCCCCEEECCCC-cCCCcChhHhc----------CCCCCCEEEccCCcCCCCCHHHhc
Confidence            677777763 467776666677777777777765 45556554433          56777777777776666653  56


Q ss_pred             cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc--CCCCcCCCCccEEeecCC
Q 009534          403 LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI--YPRALPFPHLKELHVTLC  476 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i--~~~~~~~p~L~~L~i~~C  476 (532)
                      .+++|++|++++|. +..++.            ..+..+++|++|+++++ .++.+  |.....+++|+.|+++++
T Consensus       122 ~L~~L~~L~Ls~N~-l~~l~~------------~~~~~L~~L~~L~Ls~N-~l~~~~~~~~~~~l~~L~~L~L~~N  183 (635)
T 4g8a_A          122 GLSSLQKLVAVETN-LASLEN------------FPIGHLKTLKELNVAHN-LIQSFKLPEYFSNLTNLEHLDLSSN  183 (635)
T ss_dssp             TCTTCCEEECTTSC-CCCSTT------------CCCTTCTTCCEEECCSS-CCCCCCCCGGGGGCTTCCEEECCSS
T ss_pred             CCCCCCEEECCCCc-CCCCCh------------hhhhcCcccCeeccccC-ccccCCCchhhccchhhhhhcccCc
Confidence            67777777776653 555543            24566677777777664 23332  334455667777777665

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=98.81  E-value=2.4e-08  Score=95.83  Aligned_cols=127  Identities=17%  Similarity=0.220  Sum_probs=102.5

Q ss_pred             cccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc
Q 009534          321 IVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW  400 (532)
Q Consensus       321 ~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~  400 (532)
                      .+++|+.|++++| .+..++  .+..+++|+.|+++++ .+..++. .           ..+++|++|++++|+++.++.
T Consensus        39 ~l~~L~~L~l~~n-~i~~l~--~l~~l~~L~~L~L~~N-~i~~~~~-l-----------~~l~~L~~L~L~~N~l~~l~~  102 (263)
T 1xeu_A           39 ELSGVQNFNGDNS-NIQSLA--GMQFFTNLKELHLSHN-QISDLSP-L-----------KDLTKLEELSVNRNRLKNLNG  102 (263)
T ss_dssp             HHTTCSEEECTTS-CCCCCT--TGGGCTTCCEEECCSS-CCCCCGG-G-----------TTCSSCCEEECCSSCCSCCTT
T ss_pred             hcCcCcEEECcCC-Ccccch--HHhhCCCCCEEECCCC-ccCCChh-h-----------ccCCCCCEEECCCCccCCcCc
Confidence            3577999999997 488887  3888999999999987 5665554 2           269999999999999998887


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLK  480 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~  480 (532)
                      +.. ++|+.|++++|. +..++              .+..+++|+.|+++++ +++.++ ....+++|+.|++++|. +.
T Consensus       103 ~~~-~~L~~L~L~~N~-l~~~~--------------~l~~l~~L~~L~Ls~N-~i~~~~-~l~~l~~L~~L~L~~N~-i~  163 (263)
T 1xeu_A          103 IPS-ACLSRLFLDNNE-LRDTD--------------SLIHLKNLEILSIRNN-KLKSIV-MLGFLSKLEVLDLHGNE-IT  163 (263)
T ss_dssp             CCC-SSCCEEECCSSC-CSBSG--------------GGTTCTTCCEEECTTS-CCCBCG-GGGGCTTCCEEECTTSC-CC
T ss_pred             ccc-CcccEEEccCCc-cCCCh--------------hhcCcccccEEECCCC-cCCCCh-HHccCCCCCEEECCCCc-Cc
Confidence            666 999999998874 55552              4677999999999986 477776 56789999999999974 44


Q ss_pred             CC
Q 009534          481 KL  482 (532)
Q Consensus       481 ~l  482 (532)
                      .+
T Consensus       164 ~~  165 (263)
T 1xeu_A          164 NT  165 (263)
T ss_dssp             BC
T ss_pred             ch
Confidence            44

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=98.81  E-value=4.8e-09  Score=116.48  Aligned_cols=92  Identities=17%  Similarity=0.023  Sum_probs=58.0

Q ss_pred             CCCCccEEEEeCCcccc-CCc-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc
Q 009534          381 GFFSLHKVSIWGSKLRH-VTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI  458 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~-l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i  458 (532)
                      .+++|++|++++|.+.. +|. +..+++|+.|++++|.-...++.             .+..+++|+.|+++++.-...+
T Consensus       464 ~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~-------------~~~~l~~L~~L~L~~N~l~~~~  530 (768)
T 3rgz_A          464 YVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPK-------------WIGRLENLAILKLSNNSFSGNI  530 (768)
T ss_dssp             GCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCCSCCCG-------------GGGGCTTCCEEECCSSCCEEEC
T ss_pred             CCCCceEEEecCCcccCcCCHHHhcCCCCCEEEccCCccCCcCCh-------------HHhcCCCCCEEECCCCcccCcC
Confidence            46666666666665553 332 56666677777766653334444             5666777777777776555566


Q ss_pred             CCCCcCCCCccEEeecCCCCCCCCCCC
Q 009534          459 YPRALPFPHLKELHVTLCPKLKKLPFD  485 (532)
Q Consensus       459 ~~~~~~~p~L~~L~i~~C~~L~~lp~~  485 (532)
                      |.....+++|+.|++++|+-...+|..
T Consensus       531 p~~l~~l~~L~~L~Ls~N~l~g~ip~~  557 (768)
T 3rgz_A          531 PAELGDCRSLIWLDLNTNLFNGTIPAA  557 (768)
T ss_dssp             CGGGGGCTTCCEEECCSSEEESBCCGG
T ss_pred             CHHHcCCCCCCEEECCCCccCCcCChH
Confidence            666667777777777777655566643

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=98.81  E-value=9.8e-09  Score=107.72  Aligned_cols=88  Identities=14%  Similarity=0.065  Sum_probs=50.9

Q ss_pred             CCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccc-cccccceeeccccccccc
Q 009534          381 GFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLI-PFARLERLSLGGLENLRS  457 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~-~~~~L~~L~l~~~~~L~~  457 (532)
                      .|++|++|++++|.+..++.  ++.+++|+.|+++++. +..+++            ..+. .+++|+.|+++++. +..
T Consensus       118 ~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~-l~~~~~------------~~l~~~l~~L~~L~Ls~N~-l~~  183 (487)
T 3oja_A          118 RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNE-IDTVNF------------AELAASSDTLEHLNLQYNF-IYD  183 (487)
T ss_dssp             CCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSC-CCEEEG------------GGGGGGTTTCCEEECTTSC-CCE
T ss_pred             ccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCC-CCCcCh------------HHHhhhCCcccEEecCCCc-ccc
Confidence            35667777777776665432  5667777777776654 333322            1332 46777777777653 555


Q ss_pred             cCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          458 IYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       458 i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      ++. ...+++|+.|++++| ++..+|.
T Consensus       184 ~~~-~~~l~~L~~L~Ls~N-~l~~~~~  208 (487)
T 3oja_A          184 VKG-QVVFAKLKTLDLSSN-KLAFMGP  208 (487)
T ss_dssp             EEC-CCCCTTCCEEECCSS-CCCEECG
T ss_pred             ccc-cccCCCCCEEECCCC-CCCCCCH
Confidence            543 224677777777765 3444544

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=98.80  E-value=8.8e-09  Score=107.48  Aligned_cols=103  Identities=12%  Similarity=0.250  Sum_probs=57.4

Q ss_pred             hhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeee
Q 009534          287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI  366 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~  366 (532)
                      +..+..+++|+.|+++  .+. +..++.    ...+++|++|+++++. +..++.  +.++++|++|++++| .+..++.
T Consensus        61 l~~~~~l~~L~~L~Ls--~n~-l~~~~~----~~~l~~L~~L~l~~n~-l~~~~~--~~~l~~L~~L~L~~n-~l~~~~~  129 (466)
T 1o6v_A           61 IDGVEYLNNLTQINFS--NNQ-LTDITP----LKNLTKLVDILMNNNQ-IADITP--LANLTNLTGLTLFNN-QITDIDP  129 (466)
T ss_dssp             CTTGGGCTTCCEEECC--SSC-CCCCGG----GTTCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSS-CCCCCGG
T ss_pred             CcchhhhcCCCEEECC--CCc-cCCchh----hhccccCCEEECCCCc-cccChh--hcCCCCCCEEECCCC-CCCCChH
Confidence            3445666777777743  221 122221    2234567777777654 455543  666777777777765 3443332


Q ss_pred             cccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeee
Q 009534          367 DYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQM  412 (532)
Q Consensus       367 ~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l  412 (532)
                        .          ..+++|++|++++|.+..++.+..+++|+.|.+
T Consensus       130 --~----------~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l  163 (466)
T 1o6v_A          130 --L----------KNLTNLNRLELSSNTISDISALSGLTSLQQLSF  163 (466)
T ss_dssp             --G----------TTCTTCSEEEEEEEEECCCGGGTTCTTCSEEEE
T ss_pred             --H----------cCCCCCCEEECCCCccCCChhhccCCcccEeec
Confidence              1          246667777776666555555555556655555

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=98.80  E-value=1.6e-08  Score=107.55  Aligned_cols=132  Identities=18%  Similarity=0.253  Sum_probs=74.3

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccC---
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHV---  398 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l---  398 (532)
                      +++|++|+++++. +..++...+..+++|++|+++++ .+..++.....          .+++|++|++++|.++.+   
T Consensus        49 l~~L~~L~Ls~n~-i~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~----------~l~~L~~L~Ls~n~l~~~~~~  116 (549)
T 2z81_A           49 CANLQVLILKSSR-INTIEGDAFYSLGSLEHLDLSDN-HLSSLSSSWFG----------PLSSLKYLNLMGNPYQTLGVT  116 (549)
T ss_dssp             CTTCCEEECTTSC-CCEECTTTTTTCTTCCEEECTTS-CCCSCCHHHHT----------TCTTCCEEECTTCCCSSSCSS
T ss_pred             CCcccEEECCCCC-cCccChhhccccccCCEEECCCC-ccCccCHHHhc----------cCCCCcEEECCCCcccccchh
Confidence            4556666666643 55555444666666666666665 34444433222          466666666666655532   


Q ss_pred             CchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCC
Q 009534          399 TWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       399 ~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  477 (532)
                      +.+..+++|++|++++|..+..++.            ..+..+++|++|++.++.--..+|.....+++|+.|++.++.
T Consensus       117 ~~~~~l~~L~~L~L~~n~~~~~~~~------------~~~~~l~~L~~L~L~~n~l~~~~~~~l~~l~~L~~L~l~~n~  183 (549)
T 2z81_A          117 SLFPNLTNLQTLRIGNVETFSEIRR------------IDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSE  183 (549)
T ss_dssp             CSCTTCTTCCEEEEEESSSCCEECT------------TTTTTCCEEEEEEEEETTCCEECTTTTTTCSEEEEEEEECSB
T ss_pred             hhhhccCCccEEECCCCccccccCH------------hhhhcccccCeeeccCCcccccChhhhhccccCceEecccCc
Confidence            2355666666666666554444432            245556666666666654333344455566666666666553

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=98.80  E-value=1.2e-08  Score=107.93  Aligned_cols=146  Identities=21%  Similarity=0.200  Sum_probs=96.5

Q ss_pred             ccCCCeEEEecCCCCCc-cccccccccccccceeeccccCcceeee--cccCCccccccccCCCCCccEEEEeCCcccc-
Q 009534          322 VSNTPSLSLTNCRSLSS-LSVLTLASLRHLEALDMRYCKDLEEMEI--DYAGGEVKRIRETHGFFSLHKVSIWGSKLRH-  397 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~-l~~~~l~~l~~L~~L~i~~c~~L~~l~~--~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~-  397 (532)
                      +++|++|+++++. +.. +| ..+..+++|+.|+++++. +..++.  ..          ...+++|++|++++|.+.. 
T Consensus       323 l~~L~~L~Ls~n~-l~~~~~-~~~~~l~~L~~L~L~~N~-l~~l~~~~~~----------~~~l~~L~~L~Ls~N~l~~~  389 (520)
T 2z7x_B          323 ISPFLHLDFSNNL-LTDTVF-ENCGHLTELETLILQMNQ-LKELSKIAEM----------TTQMKSLQQLDISQNSVSYD  389 (520)
T ss_dssp             CCCCCEEECCSSC-CCTTTT-TTCCCCSSCCEEECCSSC-CCBHHHHHHH----------HTTCTTCCEEECCSSCCBCC
T ss_pred             CCcccEEEeECCc-cChhhh-hhhccCCCCCEEEccCCc-cCccccchHH----------HhhCCCCCEEECCCCcCCcc
Confidence            4567777777765 443 33 336677777777777763 333221  11          1247788888888886666 


Q ss_pred             CCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecC
Q 009534          398 VTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTL  475 (532)
Q Consensus       398 l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~  475 (532)
                      +|.  +..+++|+.|++++|.-...++.             .+.  ++|+.|+++++ +++.+|.....+++|+.|++++
T Consensus       390 l~~~~~~~l~~L~~L~Ls~N~l~~~~~~-------------~l~--~~L~~L~Ls~N-~l~~ip~~~~~l~~L~~L~L~~  453 (520)
T 2z7x_B          390 EKKGDCSWTKSLLSLNMSSNILTDTIFR-------------CLP--PRIKVLDLHSN-KIKSIPKQVVKLEALQELNVAS  453 (520)
T ss_dssp             GGGCSCCCCTTCCEEECCSSCCCGGGGG-------------SCC--TTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCS
T ss_pred             cccchhccCccCCEEECcCCCCCcchhh-------------hhc--ccCCEEECCCC-cccccchhhhcCCCCCEEECCC
Confidence            653  56677888888877653233322             222  79999999987 6788988888999999999999


Q ss_pred             CCCCCCCCCCCCCCCCceeEEe
Q 009534          476 CPKLKKLPFDCTSGHERKLIIK  497 (532)
Q Consensus       476 C~~L~~lp~~~~~~l~~L~~~~  497 (532)
                      | +++.+|......+..|+..+
T Consensus       454 N-~l~~l~~~~~~~l~~L~~L~  474 (520)
T 2z7x_B          454 N-QLKSVPDGIFDRLTSLQKIW  474 (520)
T ss_dssp             S-CCCCCCTTTTTTCTTCCEEE
T ss_pred             C-cCCccCHHHhccCCcccEEE
Confidence            8 68889876222235555543

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=98.79  E-value=6.1e-09  Score=96.08  Aligned_cols=159  Identities=14%  Similarity=0.131  Sum_probs=116.2

Q ss_pred             CccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCc
Q 009534          293 LKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGE  372 (532)
Q Consensus       293 L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~  372 (532)
                      .++|+.|+++  .+. +..++.  .....+++|++|+++++ .++.++...+..+++|++|+++++ .+..++.....  
T Consensus        27 ~~~l~~L~l~--~n~-l~~~~~--~~~~~l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~Ls~n-~l~~~~~~~~~--   97 (208)
T 2o6s_A           27 PAQTTYLDLE--TNS-LKSLPN--GVFDELTSLTQLYLGGN-KLQSLPNGVFNKLTSLTYLNLSTN-QLQSLPNGVFD--   97 (208)
T ss_dssp             CTTCSEEECC--SSC-CCCCCT--TTTTTCTTCSEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTT--
T ss_pred             CCCCcEEEcC--CCc-cCcCCh--hhhcccccCcEEECCCC-ccCccChhhcCCCCCcCEEECCCC-cCCccCHhHhc--
Confidence            3578888854  331 222221  11234577999999996 588888776788999999999987 56666654433  


Q ss_pred             cccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecc
Q 009534          373 VKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLG  450 (532)
Q Consensus       373 ~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  450 (532)
                              .+++|++|++++|+++.++.  +..+++|+.|+++++. +..++.            ..+..+++|+.|++.
T Consensus        98 --------~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~N~-l~~~~~------------~~~~~l~~L~~L~l~  156 (208)
T 2o6s_A           98 --------KLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQ-LKSVPD------------GVFDRLTSLQYIWLH  156 (208)
T ss_dssp             --------TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CSCCCT------------TTTTTCTTCCEEECC
T ss_pred             --------CccCCCEEEcCCCcCcccCHhHhccCCcCCEEECCCCc-cceeCH------------HHhccCCCccEEEec
Confidence                    68999999999998888765  6789999999998864 666654            246778999999999


Q ss_pred             ccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCC
Q 009534          451 GLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTS  488 (532)
Q Consensus       451 ~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~  488 (532)
                      +++-       .+.+|.|+.|.++.+..-..+|.....
T Consensus       157 ~N~~-------~~~~~~l~~L~~~~n~~~g~ip~~~~~  187 (208)
T 2o6s_A          157 DNPW-------DCTCPGIRYLSEWINKHSGVVRNSAGS  187 (208)
T ss_dssp             SCCB-------CCCTTTTHHHHHHHHHCTTTBBCTTSS
T ss_pred             CCCe-------ecCCCCHHHHHHHHHhCCceeeccCcc
Confidence            8742       345678888888887666677765443

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=98.79  E-value=1.6e-08  Score=108.06  Aligned_cols=152  Identities=15%  Similarity=0.142  Sum_probs=101.6

Q ss_pred             ccCCCeEEEecCCCCCccc--cccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCC
Q 009534          322 VSNTPSLSLTNCRSLSSLS--VLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~--~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~  399 (532)
                      +++|++|+++++. +....  ...+..+++|+.|++++| .+..++...           ..+++|++|++++|.+...+
T Consensus       346 ~~~L~~L~l~~n~-l~~~~~~~~~~~~~~~L~~L~l~~n-~l~~~~~~~-----------~~l~~L~~L~l~~n~l~~~~  412 (570)
T 2z63_A          346 LPSLEFLDLSRNG-LSFKGCCSQSDFGTTSLKYLDLSFN-GVITMSSNF-----------LGLEQLEHLDFQHSNLKQMS  412 (570)
T ss_dssp             CTTCCEEECCSSC-CBEEEEEEHHHHTCSCCCEEECCSC-SEEEEEEEE-----------ETCTTCCEEECTTSEEESCT
T ss_pred             CCCCCEEeCcCCc-cCccccccccccccCccCEEECCCC-ccccccccc-----------cccCCCCEEEccCCcccccc
Confidence            4556666666643 43332  122456677777777776 344454432           25889999999988666642


Q ss_pred             ---chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccc-cccCCCCcCCCCccEEeecC
Q 009534          400 ---WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENL-RSIYPRALPFPHLKELHVTL  475 (532)
Q Consensus       400 ---~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L-~~i~~~~~~~p~L~~L~i~~  475 (532)
                         .+..+++|+.|++++|.-....+.             .+..+++|+.|++.+|.-. ..+|.....+++|+.|++++
T Consensus       413 ~~~~~~~l~~L~~L~l~~n~l~~~~~~-------------~~~~l~~L~~L~l~~n~l~~~~~p~~~~~l~~L~~L~l~~  479 (570)
T 2z63_A          413 EFSVFLSLRNLIYLDISHTHTRVAFNG-------------IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ  479 (570)
T ss_dssp             TSCTTTTCTTCCEEECTTSCCEECCTT-------------TTTTCTTCCEEECTTCEEGGGEECSCCTTCTTCCEEECTT
T ss_pred             chhhhhcCCCCCEEeCcCCcccccchh-------------hhhcCCcCcEEECcCCcCccccchhhhhcccCCCEEECCC
Confidence               367889999999988764333333             6788999999999998644 35787788899999999999


Q ss_pred             CCCCCCCCCCCCCCCCceeEEecch
Q 009534          476 CPKLKKLPFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       476 C~~L~~lp~~~~~~l~~L~~~~~~~  500 (532)
                      |.--...|...... ++|+..+...
T Consensus       480 n~l~~~~~~~~~~l-~~L~~L~l~~  503 (570)
T 2z63_A          480 CQLEQLSPTAFNSL-SSLQVLNMAS  503 (570)
T ss_dssp             SCCCEECTTTTTTC-TTCCEEECCS
T ss_pred             CccccCChhhhhcc-cCCCEEeCCC
Confidence            95443336554433 5555555543

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=98.78  E-value=1.2e-08  Score=110.08  Aligned_cols=85  Identities=18%  Similarity=0.161  Sum_probs=41.1

Q ss_pred             CCCCccEEEEeCCccccCC--chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc
Q 009534          381 GFFSLHKVSIWGSKLRHVT--WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI  458 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i  458 (532)
                      .+++|++|++++|.+...+  .+..+++|++|++++|.-....+.          ....+..+++|+.|++++|. +..+
T Consensus       423 ~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~----------~~~~~~~l~~L~~L~Ls~n~-l~~~  491 (606)
T 3t6q_A          423 NLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQ----------KTNSLQTLGRLEILVLSFCD-LSSI  491 (606)
T ss_dssp             TCTTCCEEECTTCCCBTTCTTTTTTCTTCCEEECTTCBCGGGEEC----------SSCGGGGCTTCCEEECTTSC-CCEE
T ss_pred             CcccCCEEECCCCccCCcCHHHHhCCCCCCEEECCCCCCCccccc----------cchhhccCCCccEEECCCCc-cCcc
Confidence            4566666666666544432  245566666666665542111111          01134445555555555542 3333


Q ss_pred             -CCCCcCCCCccEEeecCC
Q 009534          459 -YPRALPFPHLKELHVTLC  476 (532)
Q Consensus       459 -~~~~~~~p~L~~L~i~~C  476 (532)
                       |.....+++|+.|++++|
T Consensus       492 ~~~~~~~l~~L~~L~Ls~N  510 (606)
T 3t6q_A          492 DQHAFTSLKMMNHVDLSHN  510 (606)
T ss_dssp             CTTTTTTCTTCCEEECCSS
T ss_pred             ChhhhccccCCCEEECCCC
Confidence             233445555555555554

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=98.78  E-value=1.5e-08  Score=97.89  Aligned_cols=149  Identities=17%  Similarity=0.207  Sum_probs=99.5

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      +++|++|+++++ .+..++...+..+++|++|+++++ .+..++.....          .+++|++|++.+|.+..++. 
T Consensus        51 l~~L~~L~l~~n-~l~~~~~~~~~~l~~L~~L~L~~n-~l~~~~~~~~~----------~l~~L~~L~l~~n~l~~~~~~  118 (276)
T 2z62_A           51 FPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFS----------GLSSLQKLVAVETNLASLENF  118 (276)
T ss_dssp             CTTCSEEECTTC-CCCEECTTTTTTCTTCCEEECTTC-CCCEECTTTTT----------TCTTCCEEECTTSCCCCSTTC
T ss_pred             ccCCcEEECCCC-cCCccCHHHccCCcCCCEEECCCC-ccCccChhhhc----------CCccccEEECCCCCccccCch
Confidence            566888888886 477777666777888888888876 45555544333          57888888888887777553 


Q ss_pred             -hhcCCCcceeeecccccccc--ccccccccCcCcccCcccccccccceeeccccccccccCC-CCcCCCCcc----EEe
Q 009534          401 -LILAPNLKLIQMYDCRCLEE--IISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP-RALPFPHLK----ELH  472 (532)
Q Consensus       401 -l~~l~~L~~L~l~~c~~l~~--i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~L~----~L~  472 (532)
                       +..+++|++|+++++. +..  ++.             .+..+++|++|+++++ .++.++. ....+++|+    .|+
T Consensus       119 ~~~~l~~L~~L~l~~n~-l~~~~l~~-------------~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~l~l~L~  183 (276)
T 2z62_A          119 PIGHLKTLKELNVAHNL-IQSFKLPE-------------YFSNLTNLEHLDLSSN-KIQSIYCTDLRVLHQMPLLNLSLD  183 (276)
T ss_dssp             CCTTCTTCCEEECCSSC-CCCCCCCG-------------GGGGCTTCCEEECCSS-CCCEECGGGGHHHHTCTTCCEEEE
T ss_pred             hcccCCCCCEEECcCCc-cceecCch-------------hhccCCCCCEEECCCC-CCCcCCHHHhhhhhhccccceeee
Confidence             6778888888887754 444  333             6777888888888886 4555543 333444555    788


Q ss_pred             ecCCCCCCCCCCCCCCCCCceeEEecc
Q 009534          473 VTLCPKLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       473 i~~C~~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      ++++ .+..+|...... .+|+..+..
T Consensus       184 ls~n-~l~~~~~~~~~~-~~L~~L~L~  208 (276)
T 2z62_A          184 LSLN-PMNFIQPGAFKE-IRLKELALD  208 (276)
T ss_dssp             CCSS-CCCEECTTSSCS-CCEEEEECC
T ss_pred             cCCC-cccccCccccCC-CcccEEECC
Confidence            8775 456666544333 355555544

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.78  E-value=1.8e-08  Score=101.38  Aligned_cols=135  Identities=21%  Similarity=0.218  Sum_probs=106.9

Q ss_pred             cCCCeEEEecCCCCCcccccccc-ccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLA-SLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~-~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      .+++.|+|+++ .+..++...+. .+++|+.|+++++ .+..++.....          .+++|++|+|++|+++.++. 
T Consensus        39 ~~l~~L~Ls~N-~l~~l~~~~~~~~l~~L~~L~L~~N-~i~~i~~~~~~----------~l~~L~~L~Ls~N~l~~~~~~  106 (361)
T 2xot_A           39 SYTALLDLSHN-NLSRLRAEWTPTRLTNLHSLLLSHN-HLNFISSEAFV----------PVPNLRYLDLSSNHLHTLDEF  106 (361)
T ss_dssp             TTCSEEECCSS-CCCEECTTSSSSCCTTCCEEECCSS-CCCEECTTTTT----------TCTTCCEEECCSSCCCEECTT
T ss_pred             CCCCEEECCCC-CCCccChhhhhhcccccCEEECCCC-cCCccChhhcc----------CCCCCCEEECCCCcCCcCCHH
Confidence            34899999995 58888877676 8999999999986 67777655443          68999999999998888765 


Q ss_pred             -hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCC----cCCCCccEEeecC
Q 009534          401 -LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRA----LPFPHLKELHVTL  475 (532)
Q Consensus       401 -l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~----~~~p~L~~L~i~~  475 (532)
                       +..+++|+.|+++++. +..+..            ..+..+++|+.|+|+++ .+..+|...    ..+++|+.|++++
T Consensus       107 ~~~~l~~L~~L~L~~N~-i~~~~~------------~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~~~~l~~L~~L~L~~  172 (361)
T 2xot_A          107 LFSDLQALEVLLLYNNH-IVVVDR------------NAFEDMAQLQKLYLSQN-QISRFPVELIKDGNKLPKLMLLDLSS  172 (361)
T ss_dssp             TTTTCTTCCEEECCSSC-CCEECT------------TTTTTCTTCCEEECCSS-CCCSCCGGGTC----CTTCCEEECCS
T ss_pred             HhCCCcCCCEEECCCCc-ccEECH------------HHhCCcccCCEEECCCC-cCCeeCHHHhcCcccCCcCCEEECCC
Confidence             7889999999998765 555543            36788999999999985 678887754    4689999999998


Q ss_pred             CCCCCCCCC
Q 009534          476 CPKLKKLPF  484 (532)
Q Consensus       476 C~~L~~lp~  484 (532)
                      + +++.+|.
T Consensus       173 N-~l~~l~~  180 (361)
T 2xot_A          173 N-KLKKLPL  180 (361)
T ss_dssp             S-CCCCCCH
T ss_pred             C-CCCccCH
Confidence            6 6777773

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.78  E-value=9.6e-09  Score=92.15  Aligned_cols=126  Identities=13%  Similarity=0.160  Sum_probs=89.6

Q ss_pred             cCCCeEEEecCCCCCccccccccccc-cccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLR-HLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~-~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      ++|+.|+++++. +..++.  +..+. +|+.|+++++ .+..+  ...          ..+++|++|++++|.++.+|. 
T Consensus        19 ~~L~~L~l~~n~-l~~i~~--~~~~~~~L~~L~Ls~N-~l~~~--~~l----------~~l~~L~~L~Ls~N~l~~~~~~   82 (176)
T 1a9n_A           19 VRDRELDLRGYK-IPVIEN--LGATLDQFDAIDFSDN-EIRKL--DGF----------PLLRRLKTLLVNNNRICRIGEG   82 (176)
T ss_dssp             TSCEEEECTTSC-CCSCCC--GGGGTTCCSEEECCSS-CCCEE--CCC----------CCCSSCCEEECCSSCCCEECSC
T ss_pred             CCceEEEeeCCC-CchhHH--hhhcCCCCCEEECCCC-CCCcc--ccc----------ccCCCCCEEECCCCcccccCcc
Confidence            668888988864 666653  44444 8999999886 56655  222          358889999999888888764 


Q ss_pred             -hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC----CcCCCCccEEeecC
Q 009534          401 -LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR----ALPFPHLKELHVTL  475 (532)
Q Consensus       401 -l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~----~~~~p~L~~L~i~~  475 (532)
                       +..+++|+.|+++++. +..++.           ...+..+++|+.|++.+++ +..+|..    ...+|+|+.|++++
T Consensus        83 ~~~~l~~L~~L~L~~N~-i~~~~~-----------~~~l~~l~~L~~L~l~~N~-i~~~~~~~~~~~~~l~~L~~Ld~~~  149 (176)
T 1a9n_A           83 LDQALPDLTELILTNNS-LVELGD-----------LDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQK  149 (176)
T ss_dssp             HHHHCTTCCEEECCSCC-CCCGGG-----------GGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTEE
T ss_pred             hhhcCCCCCEEECCCCc-CCcchh-----------hHhhhcCCCCCEEEecCCC-CCCcHhHHHHHHHHCCccceeCCCc
Confidence             4788999999998764 555543           1146678889999988875 5566653    56678888888776


Q ss_pred             CC
Q 009534          476 CP  477 (532)
Q Consensus       476 C~  477 (532)
                      ++
T Consensus       150 n~  151 (176)
T 1a9n_A          150 VK  151 (176)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=98.76  E-value=5.1e-08  Score=96.67  Aligned_cols=183  Identities=16%  Similarity=0.192  Sum_probs=129.3

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcce--
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEE--  363 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~--  363 (532)
                      ....+..+++|+.|+++  .+. +..++...     .++|++|+++++. +..++...+..+++|+.|+++++. +..  
T Consensus        92 ~~~~~~~l~~L~~L~Ls--~n~-l~~l~~~~-----~~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n~-l~~~~  161 (330)
T 1xku_A           92 SPGAFAPLVKLERLYLS--KNQ-LKELPEKM-----PKTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGTNP-LKSSG  161 (330)
T ss_dssp             CTTTTTTCTTCCEEECC--SSC-CSBCCSSC-----CTTCCEEECCSSC-CCBBCHHHHTTCTTCCEEECCSSC-CCGGG
T ss_pred             CHHHhcCCCCCCEEECC--CCc-CCccChhh-----cccccEEECCCCc-ccccCHhHhcCCccccEEECCCCc-CCccC
Confidence            34566778888888854  321 22333221     2569999999864 777777668889999999999874 322  


Q ss_pred             eeecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccc
Q 009534          364 MEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFAR  443 (532)
Q Consensus       364 l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~  443 (532)
                      +....          ...+++|++|++++|.++.+|. ...++|+.|+++++. +..++.            ..+..+++
T Consensus       162 ~~~~~----------~~~l~~L~~L~l~~n~l~~l~~-~~~~~L~~L~l~~n~-l~~~~~------------~~~~~l~~  217 (330)
T 1xku_A          162 IENGA----------FQGMKKLSYIRIADTNITTIPQ-GLPPSLTELHLDGNK-ITKVDA------------ASLKGLNN  217 (330)
T ss_dssp             BCTTG----------GGGCTTCCEEECCSSCCCSCCS-SCCTTCSEEECTTSC-CCEECT------------GGGTTCTT
T ss_pred             cChhh----------ccCCCCcCEEECCCCccccCCc-cccccCCEEECCCCc-CCccCH------------HHhcCCCC
Confidence            11222          2368999999999998888874 334899999998875 555533            26778899


Q ss_pred             cceeeccccccccccCC-CCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecchhhhhh
Q 009534          444 LERLSLGGLENLRSIYP-RALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWWNN  505 (532)
Q Consensus       444 L~~L~l~~~~~L~~i~~-~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~w~~~  505 (532)
                      |+.|+++++. +..++. ....+++|+.|++++| ++..+|...... +.|+..+....-...
T Consensus       218 L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~lp~~l~~l-~~L~~L~l~~N~i~~  277 (330)
T 1xku_A          218 LAKLGLSFNS-ISAVDNGSLANTPHLRELHLNNN-KLVKVPGGLADH-KYIQVVYLHNNNISA  277 (330)
T ss_dssp             CCEEECCSSC-CCEECTTTGGGSTTCCEEECCSS-CCSSCCTTTTTC-SSCCEEECCSSCCCC
T ss_pred             CCEEECCCCc-CceeChhhccCCCCCCEEECCCC-cCccCChhhccC-CCcCEEECCCCcCCc
Confidence            9999999864 666654 5667899999999998 677888876554 667766665544433

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=98.76  E-value=5.4e-08  Score=90.64  Aligned_cols=145  Identities=10%  Similarity=0.113  Sum_probs=106.9

Q ss_pred             CeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCC--chhc
Q 009534          326 PSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT--WLIL  403 (532)
Q Consensus       326 ~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~--~l~~  403 (532)
                      +.+++++ ..++.+|.. ++  ++|+.|+++++ .++.++.....          .+++|++|++++|.+..++  .+..
T Consensus        14 ~~v~c~~-~~l~~iP~~-l~--~~l~~L~l~~n-~i~~i~~~~~~----------~l~~L~~L~Ls~N~i~~~~~~~~~~   78 (220)
T 2v9t_B           14 NIVDCRG-KGLTEIPTN-LP--ETITEIRLEQN-TIKVIPPGAFS----------PYKKLRRIDLSNNQISELAPDAFQG   78 (220)
T ss_dssp             TEEECTT-SCCSSCCSS-CC--TTCCEEECCSS-CCCEECTTSST----------TCTTCCEEECCSSCCCEECTTTTTT
T ss_pred             CEEEcCC-CCcCcCCCc-cC--cCCCEEECCCC-cCCCcCHhHhh----------CCCCCCEEECCCCcCCCcCHHHhhC
Confidence            4556655 357888764 44  58999999986 67777664444          6899999999999888863  3888


Q ss_pred             CCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC-CCcCCCCccEEeecCCCCCCCC
Q 009534          404 APNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP-RALPFPHLKELHVTLCPKLKKL  482 (532)
Q Consensus       404 l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~L~~L~i~~C~~L~~l  482 (532)
                      +++|++|+++++. +..++.            ..+..+++|+.|+++++ .++.++. .+..+++|+.|+++++ +++.+
T Consensus        79 l~~L~~L~Ls~N~-l~~l~~------------~~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~~~  143 (220)
T 2v9t_B           79 LRSLNSLVLYGNK-ITELPK------------SLFEGLFSLQLLLLNAN-KINCLRVDAFQDLHNLNLLSLYDN-KLQTI  143 (220)
T ss_dssp             CSSCCEEECCSSC-CCCCCT------------TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSS-CCSCC
T ss_pred             CcCCCEEECCCCc-CCccCH------------hHccCCCCCCEEECCCC-CCCEeCHHHcCCCCCCCEEECCCC-cCCEE
Confidence            9999999998764 777765            24678999999999986 5777754 5667999999999997 57777


Q ss_pred             CCCCCCCCCceeEEecch
Q 009534          483 PFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       483 p~~~~~~l~~L~~~~~~~  500 (532)
                      |......+..|+.++...
T Consensus       144 ~~~~~~~l~~L~~L~L~~  161 (220)
T 2v9t_B          144 AKGTFSPLRAIQTMHLAQ  161 (220)
T ss_dssp             CTTTTTTCTTCCEEECCS
T ss_pred             CHHHHhCCCCCCEEEeCC
Confidence            654333335555554433

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=98.75  E-value=2.1e-08  Score=106.10  Aligned_cols=156  Identities=14%  Similarity=0.174  Sum_probs=112.3

Q ss_pred             cCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCcccc--ccccccccccceeeccccCcceeeecc
Q 009534          291 LGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSV--LTLASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       291 ~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~--~~l~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      ..+++|+.|+++  .+.....++.   ....+++|+.|+++++. +..++.  ..+..+++|+.|+++++.-...+|...
T Consensus       321 ~~l~~L~~L~Ls--~n~l~~~~~~---~~~~l~~L~~L~L~~N~-l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~  394 (520)
T 2z7x_B          321 SKISPFLHLDFS--NNLLTDTVFE---NCGHLTELETLILQMNQ-LKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGD  394 (520)
T ss_dssp             SSCCCCCEEECC--SSCCCTTTTT---TCCCCSSCCEEECCSSC-CCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCS
T ss_pred             hhCCcccEEEeE--CCccChhhhh---hhccCCCCCEEEccCCc-cCccccchHHHhhCCCCCEEECCCCcCCcccccch
Confidence            467788888844  3321111222   22346779999999976 665432  237789999999999975333366543


Q ss_pred             cCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceee
Q 009534          369 AGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLS  448 (532)
Q Consensus       369 ~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~  448 (532)
                      ..          .+++|++|++++|.++...+....++|+.|++++|. +..++.             .+..+++|++|+
T Consensus       395 ~~----------~l~~L~~L~Ls~N~l~~~~~~~l~~~L~~L~Ls~N~-l~~ip~-------------~~~~l~~L~~L~  450 (520)
T 2z7x_B          395 CS----------WTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNK-IKSIPK-------------QVVKLEALQELN  450 (520)
T ss_dssp             CC----------CCTTCCEEECCSSCCCGGGGGSCCTTCCEEECCSSC-CCCCCG-------------GGGGCTTCCEEE
T ss_pred             hc----------cCccCCEEECcCCCCCcchhhhhcccCCEEECCCCc-ccccch-------------hhhcCCCCCEEE
Confidence            33          689999999999977552211222799999999874 777776             677899999999


Q ss_pred             ccccccccccCCC-CcCCCCccEEeecCCC
Q 009534          449 LGGLENLRSIYPR-ALPFPHLKELHVTLCP  477 (532)
Q Consensus       449 l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~  477 (532)
                      ++++ .++.+|.. ...+++|+.|++++++
T Consensus       451 L~~N-~l~~l~~~~~~~l~~L~~L~l~~N~  479 (520)
T 2z7x_B          451 VASN-QLKSVPDGIFDRLTSLQKIWLHTNP  479 (520)
T ss_dssp             CCSS-CCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCC-cCCccCHHHhccCCcccEEECcCCC
Confidence            9997 68889886 6678999999999875

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=98.73  E-value=1.4e-08  Score=99.93  Aligned_cols=150  Identities=15%  Similarity=0.100  Sum_probs=92.5

Q ss_pred             ccCCCeEEEecCCCCCccc---cccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc-
Q 009534          322 VSNTPSLSLTNCRSLSSLS---VLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH-  397 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~---~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~-  397 (532)
                      +++|++|+++++.--...+   ...+..+++|++|+++++. +..++.....          .+++|++|++++|++.. 
T Consensus       116 ~~~L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~-l~~~~~~~~~----------~l~~L~~L~Ls~N~l~~~  184 (310)
T 4glp_A          116 GLALSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAH-SPAFSCEQVR----------AFPALTSLDLSDNPGLGE  184 (310)
T ss_dssp             CBCCSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCS-SCCCCTTSCC----------CCTTCCEEECCSCTTCHH
T ss_pred             CCCCCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCC-cchhhHHHhc----------cCCCCCEEECCCCCCccc
Confidence            4567777777755222211   1223456777777777763 4444433332          57888888888885432 


Q ss_pred             --C---CchhcCCCcceeeeccccccccccccccccCcCcccCcc-cccccccceeecccccccccc-CCCCcCC---CC
Q 009534          398 --V---TWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQN-LIPFARLERLSLGGLENLRSI-YPRALPF---PH  467 (532)
Q Consensus       398 --l---~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~-~~~~~~L~~L~l~~~~~L~~i-~~~~~~~---p~  467 (532)
                        +   .++..+++|++|++++|. ++.++..          +.. +..+++|++|+++++. +..+ |.....+   ++
T Consensus       185 ~~~~~~~~~~~l~~L~~L~Ls~N~-l~~l~~~----------~~~l~~~l~~L~~L~Ls~N~-l~~~~p~~~~~~~~~~~  252 (310)
T 4glp_A          185 RGLMAALCPHKFPAIQNLALRNTG-METPTGV----------CAALAAAGVQPHSLDLSHNS-LRATVNPSAPRCMWSSA  252 (310)
T ss_dssp             HHHHTTSCTTSSCCCCSCBCCSSC-CCCHHHH----------HHHHHHHTCCCSSEECTTSC-CCCCCCSCCSSCCCCTT
T ss_pred             hhhhHHHhhhcCCCCCEEECCCCC-CCchHHH----------HHHHHhcCCCCCEEECCCCC-CCccchhhHHhccCcCc
Confidence              2   124677888888887764 4444320          001 3567999999999874 5555 6555555   79


Q ss_pred             ccEEeecCCCCCCCCCCCCCCCCCceeE
Q 009534          468 LKELHVTLCPKLKKLPFDCTSGHERKLI  495 (532)
Q Consensus       468 L~~L~i~~C~~L~~lp~~~~~~l~~L~~  495 (532)
                      |++|++++| +++.+|......++.|.+
T Consensus       253 L~~L~Ls~N-~l~~lp~~~~~~L~~L~L  279 (310)
T 4glp_A          253 LNSLNLSFA-GLEQVPKGLPAKLRVLDL  279 (310)
T ss_dssp             CCCEECCSS-CCCSCCSCCCSCCSCEEC
T ss_pred             CCEEECCCC-CCCchhhhhcCCCCEEEC
Confidence            999999887 577888866533444433

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=98.72  E-value=3.9e-08  Score=102.01  Aligned_cols=132  Identities=17%  Similarity=0.218  Sum_probs=67.2

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc-CC-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH-VT-  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~-l~-  399 (532)
                      +++|++|+++++.....++...+..+++|++|+++++. +..++.....          .+++|++|++++|.++. ++ 
T Consensus        53 l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~----------~l~~L~~L~L~~n~l~~~~~~  121 (455)
T 3v47_A           53 LQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQ-FLQLETGAFN----------GLANLEVLTLTQCNLDGAVLS  121 (455)
T ss_dssp             CTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCT-TCEECTTTTT----------TCTTCCEEECTTSCCBTHHHH
T ss_pred             CccccEEECcCCcccceECcccccccccCCEEeCCCCc-cCccChhhcc----------CcccCCEEeCCCCCCCccccC
Confidence            45566666666543334544445566666666666653 3333322222          46666666666665543 11 


Q ss_pred             c--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccC-CCCcCC--CCccEEeec
Q 009534          400 W--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIY-PRALPF--PHLKELHVT  474 (532)
Q Consensus       400 ~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~-~~~~~~--p~L~~L~i~  474 (532)
                      .  +..+++|++|+++++. +..+.+           ...+..+++|++|+++++. +..++ .....+  +.|+.|++.
T Consensus       122 ~~~~~~l~~L~~L~L~~n~-l~~~~~-----------~~~~~~l~~L~~L~L~~n~-l~~~~~~~l~~l~~~~L~~L~l~  188 (455)
T 3v47_A          122 GNFFKPLTSLEMLVLRDNN-IKKIQP-----------ASFFLNMRRFHVLDLTFNK-VKSICEEDLLNFQGKHFTLLRLS  188 (455)
T ss_dssp             SSTTTTCTTCCEEECCSSB-CCSCCC-----------CGGGGGCTTCCEEECTTCC-BSCCCTTTSGGGTTCEEEEEECT
T ss_pred             cccccCcccCCEEECCCCc-cCccCc-----------ccccCCCCcccEEeCCCCc-ccccChhhhhccccccccccccc
Confidence            1  5556666666665544 333322           0014556666666666653 33332 222222  556666666


Q ss_pred             CCC
Q 009534          475 LCP  477 (532)
Q Consensus       475 ~C~  477 (532)
                      +|.
T Consensus       189 ~n~  191 (455)
T 3v47_A          189 SIT  191 (455)
T ss_dssp             TCB
T ss_pred             cCc
Confidence            653

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=98.71  E-value=1.1e-07  Score=104.04  Aligned_cols=94  Identities=10%  Similarity=0.004  Sum_probs=54.6

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeecccc-----------------CcceeeecccCCccccccccCCCCC
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCK-----------------DLEEMEIDYAGGEVKRIRETHGFFS  384 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~-----------------~L~~l~~~~~~~~~~~~~~~~~l~~  384 (532)
                      +++|++|+++++. +..++...+..+++|++|++++|.                 .++.+...........+.....+++
T Consensus       328 l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~Ls~n~~~~~~l~~~~f~~~~~~~L~~L~L~~n~l~~~~~~~~~~l~~  406 (680)
T 1ziw_A          328 LKCLEHLNMEDND-IPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGH  406 (680)
T ss_dssp             CTTCCEEECCSCC-BCCCCTTTTTTCTTCCEEECTTCBSCCCEECTTTTGGGTTSCCCEEECTTSCCCEECTTTTTTCTT
T ss_pred             CCCCCEEECCCCc-cCCCChhHhccccCCcEEECCCCchhhhhcchhhhcccccCcCceEECCCCCCCeEChhhhhCCCC
Confidence            4668888887754 555555556777888888877653                 2222221111111112223445677


Q ss_pred             ccEEEEeCCcccc-CC--chhcCCCcceeeecccc
Q 009534          385 LHKVSIWGSKLRH-VT--WLILAPNLKLIQMYDCR  416 (532)
Q Consensus       385 L~~L~l~~c~L~~-l~--~l~~l~~L~~L~l~~c~  416 (532)
                      |++|++++|.+.. +|  .+..+++|+.|++++|.
T Consensus       407 L~~L~L~~N~l~~~~~~~~~~~l~~L~~L~Ls~n~  441 (680)
T 1ziw_A          407 LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNK  441 (680)
T ss_dssp             CCEEECCSSCCEEECCSGGGTTCTTCCEEECCSCS
T ss_pred             CCEEeCCCCcCccccCcccccCcccccEEecCCCC
Confidence            7777777775543 43  25667777777777664

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=98.69  E-value=5.4e-08  Score=103.98  Aligned_cols=150  Identities=17%  Similarity=0.099  Sum_probs=98.4

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc-CCc
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH-VTW  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~-l~~  400 (532)
                      +++|++|+++++. +.......+..+++|+.|+++++ .++.++...        .....+++|++|++++|.+.. +|.
T Consensus       352 l~~L~~L~l~~n~-l~~~~~~~~~~l~~L~~L~L~~N-~l~~~~~~~--------~~~~~l~~L~~L~l~~N~l~~~~~~  421 (562)
T 3a79_B          352 PSSFTFLNFTQNV-FTDSVFQGCSTLKRLQTLILQRN-GLKNFFKVA--------LMTKNMSSLETLDVSLNSLNSHAYD  421 (562)
T ss_dssp             CCCCCEEECCSSC-CCTTTTTTCCSCSSCCEEECCSS-CCCBTTHHH--------HTTTTCTTCCEEECTTSCCBSCCSS
T ss_pred             CCCceEEECCCCc-cccchhhhhcccCCCCEEECCCC-CcCCcccch--------hhhcCCCCCCEEECCCCcCCCccCh
Confidence            4567777777764 44432233677777888887775 444332100        012257888888888886666 553


Q ss_pred             --hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCC
Q 009534          401 --LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPK  478 (532)
Q Consensus       401 --l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~  478 (532)
                        +..+++|+.|++++|.-...++.             .+.  ++|+.|+++++ +++.+|...+.+++|+.|+++++ +
T Consensus       422 ~~~~~l~~L~~L~l~~n~l~~~~~~-------------~l~--~~L~~L~L~~N-~l~~ip~~~~~l~~L~~L~L~~N-~  484 (562)
T 3a79_B          422 RTCAWAESILVLNLSSNMLTGSVFR-------------CLP--PKVKVLDLHNN-RIMSIPKDVTHLQALQELNVASN-Q  484 (562)
T ss_dssp             CCCCCCTTCCEEECCSSCCCGGGGS-------------SCC--TTCSEEECCSS-CCCCCCTTTTSSCCCSEEECCSS-C
T ss_pred             hhhcCcccCCEEECCCCCCCcchhh-------------hhc--CcCCEEECCCC-cCcccChhhcCCCCCCEEECCCC-C
Confidence              56678888888877652222222             222  69999999997 78899988889999999999997 6


Q ss_pred             CCCCCCCCCCCCCceeEEec
Q 009534          479 LKKLPFDCTSGHERKLIIKG  498 (532)
Q Consensus       479 L~~lp~~~~~~l~~L~~~~~  498 (532)
                      ++.+|......++.|+..+.
T Consensus       485 l~~l~~~~~~~l~~L~~L~l  504 (562)
T 3a79_B          485 LKSVPDGVFDRLTSLQYIWL  504 (562)
T ss_dssp             CCCCCTTSTTTCTTCCCEEC
T ss_pred             CCCCCHHHHhcCCCCCEEEe
Confidence            77898762222355555443

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=98.68  E-value=5.5e-08  Score=100.99  Aligned_cols=139  Identities=22%  Similarity=0.167  Sum_probs=75.6

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchh
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLI  402 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~  402 (532)
                      ++|++|+++++. ++.+|  .+.++++|++|+++++ .++.+|.              .+++|++|++++|.++.+|.+.
T Consensus       131 ~~L~~L~L~~n~-l~~lp--~~~~l~~L~~L~l~~N-~l~~lp~--------------~~~~L~~L~L~~n~l~~l~~~~  192 (454)
T 1jl5_A          131 PLLEYLGVSNNQ-LEKLP--ELQNSSFLKIIDVDNN-SLKKLPD--------------LPPSLEFIAAGNNQLEELPELQ  192 (454)
T ss_dssp             TTCCEEECCSSC-CSSCC--CCTTCTTCCEEECCSS-CCSCCCC--------------CCTTCCEEECCSSCCSSCCCCT
T ss_pred             CCCCEEECcCCC-CCCCc--ccCCCCCCCEEECCCC-cCcccCC--------------CcccccEEECcCCcCCcCcccc
Confidence            348888888764 66676  2777888888888776 4444432              2346666666666666666666


Q ss_pred             cCCCcceeeeccccccccccccccc------cCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCC
Q 009534          403 LAPNLKLIQMYDCRCLEEIISLEKL------GEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLC  476 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~~~~~~------~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C  476 (532)
                      .+++|+.|++++|. +..++.....      .......-..+..+++|++|+++++ .++.+|.   .+++|+.|++++|
T Consensus       193 ~l~~L~~L~l~~N~-l~~l~~~~~~L~~L~l~~n~l~~lp~~~~l~~L~~L~l~~N-~l~~l~~---~~~~L~~L~l~~N  267 (454)
T 1jl5_A          193 NLPFLTAIYADNNS-LKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNN-LLKTLPD---LPPSLEALNVRDN  267 (454)
T ss_dssp             TCTTCCEEECCSSC-CSSCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSS-CCSSCCS---CCTTCCEEECCSS
T ss_pred             CCCCCCEEECCCCc-CCcCCCCcCcccEEECcCCcCCcccccCCCCCCCEEECCCC-cCCcccc---cccccCEEECCCC
Confidence            66666666666543 3333220000      0000000012445666666666664 3444543   2356666666665


Q ss_pred             CCCCCCCCC
Q 009534          477 PKLKKLPFD  485 (532)
Q Consensus       477 ~~L~~lp~~  485 (532)
                      . +..+|..
T Consensus       268 ~-l~~l~~~  275 (454)
T 1jl5_A          268 Y-LTDLPEL  275 (454)
T ss_dssp             C-CSCCCCC
T ss_pred             c-ccccCcc
Confidence            3 4555543

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=98.67  E-value=7.8e-08  Score=95.45  Aligned_cols=130  Identities=23%  Similarity=0.241  Sum_probs=67.1

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|++|+++++. +..++...+..+++|++|+++++ .+..+|...             +++|++|++++|.+..++.  
T Consensus        78 ~~L~~L~L~~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~-------------~~~L~~L~l~~n~i~~~~~~~  142 (332)
T 2ft3_A           78 QHLYALVLVNNK-ISKIHEKAFSPLRKLQKLYISKN-HLVEIPPNL-------------PSSLVELRIHDNRIRKVPKGV  142 (332)
T ss_dssp             TTCCEEECCSSC-CCEECGGGSTTCTTCCEEECCSS-CCCSCCSSC-------------CTTCCEEECCSSCCCCCCSGG
T ss_pred             CCCcEEECCCCc-cCccCHhHhhCcCCCCEEECCCC-cCCccCccc-------------cccCCEEECCCCccCccCHhH
Confidence            445555555543 44443333555555555555554 233333211             2566666666665555543  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLK  480 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~  480 (532)
                      +..+++|+.|+++++. +.....          .+..+..+ +|+.|+++++ .+..+|....  ++|+.|++++| ++.
T Consensus       143 ~~~l~~L~~L~l~~n~-l~~~~~----------~~~~~~~l-~L~~L~l~~n-~l~~l~~~~~--~~L~~L~l~~n-~i~  206 (332)
T 2ft3_A          143 FSGLRNMNCIEMGGNP-LENSGF----------EPGAFDGL-KLNYLRISEA-KLTGIPKDLP--ETLNELHLDHN-KIQ  206 (332)
T ss_dssp             GSSCSSCCEEECCSCC-CBGGGS----------CTTSSCSC-CCSCCBCCSS-BCSSCCSSSC--SSCSCCBCCSS-CCC
T ss_pred             hCCCccCCEEECCCCc-cccCCC----------CcccccCC-ccCEEECcCC-CCCccCcccc--CCCCEEECCCC-cCC
Confidence            4556666666665543 221110          01133434 7777777765 3566665433  67888888876 444


Q ss_pred             CCC
Q 009534          481 KLP  483 (532)
Q Consensus       481 ~lp  483 (532)
                      .+|
T Consensus       207 ~~~  209 (332)
T 2ft3_A          207 AIE  209 (332)
T ss_dssp             CCC
T ss_pred             ccC
Confidence            444

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=98.66  E-value=2.9e-08  Score=88.15  Aligned_cols=111  Identities=23%  Similarity=0.250  Sum_probs=87.8

Q ss_pred             ccccccceeeccccCcc--eeeecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeecccccccc-cc
Q 009534          346 SLRHLEALDMRYCKDLE--EMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEE-II  422 (532)
Q Consensus       346 ~l~~L~~L~i~~c~~L~--~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~-i~  422 (532)
                      ..++|+.|++++|. +.  .+|...           ..+++|++|++++|.++.++.+..+++|+.|++++|. +.. ++
T Consensus        22 ~~~~L~~L~l~~n~-l~~~~i~~~~-----------~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~-l~~~~~   88 (168)
T 2ell_A           22 TPAAVRELVLDNCK-SNDGKIEGLT-----------AEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENR-IFGGLD   88 (168)
T ss_dssp             CTTSCSEEECCSCB-CBTTBCSSCC-----------GGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCC-CCSCCC
T ss_pred             CcccCCEEECCCCC-CChhhHHHHH-----------HhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCc-CchHHH
Confidence            34789999999985 44  454432           2589999999999988888778999999999999876 454 43


Q ss_pred             ccccccCcCcccCcccccccccceeeccccccccccC--CCCcCCCCccEEeecCCCCCCCCCC
Q 009534          423 SLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIY--PRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       423 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~--~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      .             .+..+++|++|+++++ .++.++  .....+++|+.|++++|+ +..+|.
T Consensus        89 ~-------------~~~~l~~L~~L~Ls~N-~l~~~~~~~~l~~l~~L~~L~l~~N~-l~~~~~  137 (168)
T 2ell_A           89 M-------------LAEKLPNLTHLNLSGN-KLKDISTLEPLKKLECLKSLDLFNCE-VTNLND  137 (168)
T ss_dssp             H-------------HHHHCTTCCEEECBSS-SCCSSGGGGGGSSCSCCCEEECCSSG-GGTSTT
T ss_pred             H-------------HHhhCCCCCEEeccCC-ccCcchhHHHHhcCCCCCEEEeeCCc-CcchHH
Confidence            3             5566999999999997 677776  466789999999999984 556654

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=98.64  E-value=5.8e-08  Score=108.95  Aligned_cols=84  Identities=15%  Similarity=0.173  Sum_probs=46.1

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc-CCc
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH-VTW  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~-l~~  400 (532)
                      +++|++|++++|.....++...+.++++|++|+++++ .+..++.....          .+++|++|++++|.+.. ++.
T Consensus        47 l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N-~l~~~~p~~~~----------~l~~L~~L~Ls~n~l~~~~~~  115 (844)
T 3j0a_A           47 LEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSS-KIYFLHPDAFQ----------GLFHLFELRLYFCGLSDAVLK  115 (844)
T ss_dssp             CCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTC-CCCEECTTSSC----------SCSSCCCEECTTCCCSSCCST
T ss_pred             cccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCC-cCcccCHhHcc----------CCcccCEeeCcCCCCCccccc
Confidence            4556667776665555664445666666666666665 34444333322          45566666666554443 221


Q ss_pred             ---hhcCCCcceeeecccc
Q 009534          401 ---LILAPNLKLIQMYDCR  416 (532)
Q Consensus       401 ---l~~l~~L~~L~l~~c~  416 (532)
                         +..+++|++|++++|.
T Consensus       116 ~~~~~~L~~L~~L~Ls~N~  134 (844)
T 3j0a_A          116 DGYFRNLKALTRLDLSKNQ  134 (844)
T ss_dssp             TCCCSSCSSCCEEEEESCC
T ss_pred             CccccccCCCCEEECCCCc
Confidence               4555566666665543

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=98.64  E-value=8.2e-08  Score=102.58  Aligned_cols=155  Identities=14%  Similarity=0.112  Sum_probs=112.7

Q ss_pred             cCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCcccc--ccccccccccceeeccccCcceeeecc
Q 009534          291 LGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSV--LTLASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       291 ~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~--~~l~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      ..+++|+.|+++  .+.-....+.   ....+++|+.|+++++. ++.++.  ..+..+++|+.|+++++.-...++...
T Consensus       350 ~~l~~L~~L~l~--~n~l~~~~~~---~~~~l~~L~~L~L~~N~-l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~  423 (562)
T 3a79_B          350 PSPSSFTFLNFT--QNVFTDSVFQ---GCSTLKRLQTLILQRNG-LKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRT  423 (562)
T ss_dssp             SSCCCCCEEECC--SSCCCTTTTT---TCCSCSSCCEEECCSSC-CCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCC
T ss_pred             cCCCCceEEECC--CCccccchhh---hhcccCCCCEEECCCCC-cCCcccchhhhcCCCCCCEEECCCCcCCCccChhh
Confidence            567788888844  3321111221   22346779999999964 776542  237789999999999975333366554


Q ss_pred             cCCccccccccCCCCCccEEEEeCCccccCCchhcC-CCcceeeeccccccccccccccccCcCcccCccccccccccee
Q 009534          369 AGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILA-PNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERL  447 (532)
Q Consensus       369 ~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l-~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L  447 (532)
                      ..          .+++|++|++++|+++... ...+ ++|+.|+++++ .+..++.             .+..+++|+.|
T Consensus       424 ~~----------~l~~L~~L~l~~n~l~~~~-~~~l~~~L~~L~L~~N-~l~~ip~-------------~~~~l~~L~~L  478 (562)
T 3a79_B          424 CA----------WAESILVLNLSSNMLTGSV-FRCLPPKVKVLDLHNN-RIMSIPK-------------DVTHLQALQEL  478 (562)
T ss_dssp             CC----------CCTTCCEEECCSSCCCGGG-GSSCCTTCSEEECCSS-CCCCCCT-------------TTTSSCCCSEE
T ss_pred             hc----------CcccCCEEECCCCCCCcch-hhhhcCcCCEEECCCC-cCcccCh-------------hhcCCCCCCEE
Confidence            43          6899999999999776522 1233 79999999887 5788876             66689999999


Q ss_pred             eccccccccccCCC-CcCCCCccEEeecCCC
Q 009534          448 SLGGLENLRSIYPR-ALPFPHLKELHVTLCP  477 (532)
Q Consensus       448 ~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~  477 (532)
                      +++++ +++.+|.. ...+++|+.|+++++|
T Consensus       479 ~L~~N-~l~~l~~~~~~~l~~L~~L~l~~N~  508 (562)
T 3a79_B          479 NVASN-QLKSVPDGVFDRLTSLQYIWLHDNP  508 (562)
T ss_dssp             ECCSS-CCCCCCTTSTTTCTTCCCEECCSCC
T ss_pred             ECCCC-CCCCCCHHHHhcCCCCCEEEecCCC
Confidence            99986 68889886 6789999999999875

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=98.63  E-value=2.5e-08  Score=89.35  Aligned_cols=133  Identities=9%  Similarity=0.116  Sum_probs=95.9

Q ss_pred             cCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccC
Q 009534          291 LGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAG  370 (532)
Q Consensus       291 ~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~  370 (532)
                      ..+.+|+.|+++  ++ .+..++   ......++|+.|+++++. ++.+  ..+..+++|++|+++++ .+..++.....
T Consensus        16 ~~~~~L~~L~l~--~n-~l~~i~---~~~~~~~~L~~L~Ls~N~-l~~~--~~l~~l~~L~~L~Ls~N-~l~~~~~~~~~   85 (176)
T 1a9n_A           16 TNAVRDRELDLR--GY-KIPVIE---NLGATLDQFDAIDFSDNE-IRKL--DGFPLLRRLKTLLVNNN-RICRIGEGLDQ   85 (176)
T ss_dssp             ECTTSCEEEECT--TS-CCCSCC---CGGGGTTCCSEEECCSSC-CCEE--CCCCCCSSCCEEECCSS-CCCEECSCHHH
T ss_pred             CCcCCceEEEee--CC-CCchhH---HhhhcCCCCCEEECCCCC-CCcc--cccccCCCCCEEECCCC-cccccCcchhh
Confidence            456788888843  43 222332   222333479999999974 7777  34888999999999997 57777655433


Q ss_pred             CccccccccCCCCCccEEEEeCCccccCCc---hhcCCCcceeeeccccccccccccccccCcCcccCccccccccccee
Q 009534          371 GEVKRIRETHGFFSLHKVSIWGSKLRHVTW---LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERL  447 (532)
Q Consensus       371 ~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~---l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L  447 (532)
                                .+++|++|++++|.+..+|.   +..+++|+.|++++++ +..++...         ...+..+|+|+.|
T Consensus        86 ----------~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~l~~N~-i~~~~~~~---------~~~~~~l~~L~~L  145 (176)
T 1a9n_A           86 ----------ALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNP-VTNKKHYR---------LYVIYKVPQVRVL  145 (176)
T ss_dssp             ----------HCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSG-GGGSTTHH---------HHHHHHCTTCSEE
T ss_pred             ----------cCCCCCEEECCCCcCCcchhhHhhhcCCCCCEEEecCCC-CCCcHhHH---------HHHHHHCCcccee
Confidence                      58999999999998888764   7889999999999876 55554300         0026779999999


Q ss_pred             eccccc
Q 009534          448 SLGGLE  453 (532)
Q Consensus       448 ~l~~~~  453 (532)
                      ++.+++
T Consensus       146 d~~~n~  151 (176)
T 1a9n_A          146 DFQKVK  151 (176)
T ss_dssp             TTEECC
T ss_pred             CCCcCC
Confidence            998864

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=98.62  E-value=9.5e-08  Score=107.19  Aligned_cols=164  Identities=17%  Similarity=0.136  Sum_probs=112.7

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      ....+..+++|+.|+++  .+.....+.  +.....+++|++|+|+++. +..++...+.++++|+.|++++|.-...++
T Consensus        40 ~~~~~~~l~~L~~LdLs--~n~~~~~i~--~~~f~~L~~L~~L~Ls~N~-l~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~  114 (844)
T 3j0a_A           40 TASSFPFLEQLQLLELG--SQYTPLTID--KEAFRNLPNLRILDLGSSK-IYFLHPDAFQGLFHLFELRLYFCGLSDAVL  114 (844)
T ss_dssp             CSSSCSSCCSCSEEEEC--TTCCCCEEC--TTTTSSCTTCCEEECTTCC-CCEECTTSSCSCSSCCCEECTTCCCSSCCS
T ss_pred             ChhHCcccccCeEEeCC--CCCCccccC--HHHhcCCCCCCEEECCCCc-CcccCHhHccCCcccCEeeCcCCCCCcccc
Confidence            44567788999999954  442222221  1122346789999999975 777765669999999999999984333233


Q ss_pred             ec-ccCCccccccccCCCCCccEEEEeCCccccCC---chhcCCCcceeeeccccccccccccccccCcCcccCcccccc
Q 009534          366 ID-YAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT---WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPF  441 (532)
Q Consensus       366 ~~-~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~---~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~  441 (532)
                      .. +.          ..+++|++|++++|.++.++   .++.+++|++|+++++. +..+..            ..+..+
T Consensus       115 ~~~~~----------~~L~~L~~L~Ls~N~l~~~~~~~~~~~L~~L~~L~Ls~N~-i~~~~~------------~~l~~l  171 (844)
T 3j0a_A          115 KDGYF----------RNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQ-IFLVCE------------HELEPL  171 (844)
T ss_dssp             TTCCC----------SSCSSCCEEEEESCCCCCCCCCGGGGTCSSCCEEEEESSC-CCCCCS------------GGGHHH
T ss_pred             cCccc----------cccCCCCEEECCCCcccccccchhHhhCCCCCEEECCCCc-CCeeCH------------HHcccc
Confidence            22 22          36999999999999777753   37899999999998764 444322            144445


Q ss_pred             --cccceeeccccccccccCCCCcCCCC------ccEEeecCCC
Q 009534          442 --ARLERLSLGGLENLRSIYPRALPFPH------LKELHVTLCP  477 (532)
Q Consensus       442 --~~L~~L~l~~~~~L~~i~~~~~~~p~------L~~L~i~~C~  477 (532)
                        ++|+.|++.++.--...+.....++.      |+.|++++|.
T Consensus       172 ~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~~~L~~L~Ls~n~  215 (844)
T 3j0a_A          172 QGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNG  215 (844)
T ss_dssp             HHCSSCCCEECCSBSCCCCCCCCCSSSCTTTTCCBSEEBCSSCC
T ss_pred             cCCccceEECCCCccccccccchhhcCCccccCceeEEecCCCc
Confidence              78899998887655545544444444      8899998874

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.62  E-value=7.1e-08  Score=102.85  Aligned_cols=119  Identities=22%  Similarity=0.242  Sum_probs=93.3

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchhc
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLIL  403 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~  403 (532)
                      +|+.|+++++ .++.+|.  +..+++|+.|+++++ .+..+|....           .+++|++|++++|.++.+|.++.
T Consensus       442 ~L~~L~Ls~n-~l~~lp~--~~~l~~L~~L~Ls~N-~l~~lp~~~~-----------~l~~L~~L~Ls~N~l~~lp~l~~  506 (567)
T 1dce_A          442 DVRVLHLAHK-DLTVLCH--LEQLLLVTHLDLSHN-RLRALPPALA-----------ALRCLEVLQASDNALENVDGVAN  506 (567)
T ss_dssp             TCSEEECTTS-CCSSCCC--GGGGTTCCEEECCSS-CCCCCCGGGG-----------GCTTCCEEECCSSCCCCCGGGTT
T ss_pred             CceEEEecCC-CCCCCcC--ccccccCcEeecCcc-cccccchhhh-----------cCCCCCEEECCCCCCCCCcccCC
Confidence            4889999986 5788874  888999999999986 5666766443           58999999999998888888889


Q ss_pred             CCCcceeeeccccccccc--cccccccCcCcccCcccccccccceeeccccccccccCCCCc----CCCCccEEe
Q 009534          404 APNLKLIQMYDCRCLEEI--ISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRAL----PFPHLKELH  472 (532)
Q Consensus       404 l~~L~~L~l~~c~~l~~i--~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~----~~p~L~~L~  472 (532)
                      +++|+.|+++++. +..+  +.             .+..+++|+.|++++++ +..+|....    .+|+|+.|+
T Consensus       507 l~~L~~L~Ls~N~-l~~~~~p~-------------~l~~l~~L~~L~L~~N~-l~~~~~~~~~l~~~lp~L~~L~  566 (567)
T 1dce_A          507 LPRLQELLLCNNR-LQQSAAIQ-------------PLVSCPRLVLLNLQGNS-LCQEEGIQERLAEMLPSVSSIL  566 (567)
T ss_dssp             CSSCCEEECCSSC-CCSSSTTG-------------GGGGCTTCCEEECTTSG-GGGSSSCTTHHHHHCTTCSEEE
T ss_pred             CCCCcEEECCCCC-CCCCCCcH-------------HHhcCCCCCEEEecCCc-CCCCccHHHHHHHHCcccCccC
Confidence            9999999998764 6666  44             78889999999999864 666665332    278888775

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=98.61  E-value=8.5e-08  Score=94.36  Aligned_cols=179  Identities=16%  Similarity=0.146  Sum_probs=118.8

Q ss_pred             CCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCcccccccccc-----ccccceeeccccCcceeee
Q 009534          292 GLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASL-----RHLEALDMRYCKDLEEMEI  366 (532)
Q Consensus       292 ~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l-----~~L~~L~i~~c~~L~~l~~  366 (532)
                      .+++|+.|+++-....  ..++... ....+++|++|+++++. +..+| ..+..+     ++|++|+++++ .+..++.
T Consensus        93 ~l~~L~~L~L~~n~l~--~~~~~~~-~~~~l~~L~~L~Ls~N~-l~~~~-~~~~~l~~~~~~~L~~L~L~~N-~l~~~~~  166 (312)
T 1wwl_A           93 GISGLQELTLENLEVT--GTAPPPL-LEATGPDLNILNLRNVS-WATRD-AWLAELQQWLKPGLKVLSIAQA-HSLNFSC  166 (312)
T ss_dssp             TTSCCCEEEEEEEBCB--SCCCCCS-SSCCSCCCSEEEEESCB-CSSSS-SHHHHHHTTCCTTCCEEEEESC-SCCCCCT
T ss_pred             CcCCccEEEccCCccc--chhHHHH-HHhcCCCccEEEccCCC-Ccchh-HHHHHHHHhhcCCCcEEEeeCC-CCccchH
Confidence            5788999996533221  1222211 11345779999999965 66665 336666     89999999987 4555554


Q ss_pred             cccCCccccccccCCCCCccEEEEeCCcccc---CC-ch--hcCCCcceeeeccccccccccccccccCcCcccCccccc
Q 009534          367 DYAGGEVKRIRETHGFFSLHKVSIWGSKLRH---VT-WL--ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIP  440 (532)
Q Consensus       367 ~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~---l~-~l--~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~  440 (532)
                      ....          .+++|++|++++|++..   ++ .+  ..+++|++|++++|. +..++...         ...+..
T Consensus       167 ~~~~----------~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~-l~~~~~~~---------~~~~~~  226 (312)
T 1wwl_A          167 EQVR----------VFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAG-METPSGVC---------SALAAA  226 (312)
T ss_dssp             TTCC----------CCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSC-CCCHHHHH---------HHHHHT
T ss_pred             HHhc----------cCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCc-CcchHHHH---------HHHHhc
Confidence            4433          68999999999996543   12 23  788999999998874 55332200         012345


Q ss_pred             ccccceeeccccccccccC-C-CCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecchh
Q 009534          441 FARLERLSLGGLENLRSIY-P-RALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEE  501 (532)
Q Consensus       441 ~~~L~~L~l~~~~~L~~i~-~-~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~  501 (532)
                      +++|+.|+++++. +...+ . ....+++|+.|++++| +++.+|....   .+|+..+...+
T Consensus       227 l~~L~~L~Ls~N~-l~~~~~~~~~~~l~~L~~L~Ls~N-~l~~ip~~~~---~~L~~L~Ls~N  284 (312)
T 1wwl_A          227 RVQLQGLDLSHNS-LRDAAGAPSCDWPSQLNSLNLSFT-GLKQVPKGLP---AKLSVLDLSYN  284 (312)
T ss_dssp             TCCCSEEECTTSC-CCSSCCCSCCCCCTTCCEEECTTS-CCSSCCSSCC---SEEEEEECCSS
T ss_pred             CCCCCEEECCCCc-CCcccchhhhhhcCCCCEEECCCC-ccChhhhhcc---CCceEEECCCC
Confidence            7899999999874 55543 2 3345799999999998 4678888665   56666666544

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=98.60  E-value=1.5e-08  Score=87.99  Aligned_cols=111  Identities=18%  Similarity=0.197  Sum_probs=87.7

Q ss_pred             ccccccceeeccccCcc--eeeecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeecccccccc-cc
Q 009534          346 SLRHLEALDMRYCKDLE--EMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEE-II  422 (532)
Q Consensus       346 ~l~~L~~L~i~~c~~L~--~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~-i~  422 (532)
                      ..++|+.|++++|. +.  .++...           ..+++|++|++++|.++.++.+..+++|+.|++++|. +.. ++
T Consensus        15 ~~~~l~~L~l~~n~-l~~~~~~~~~-----------~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~n~-i~~~~~   81 (149)
T 2je0_A           15 TPSDVKELVLDNSR-SNEGKLEGLT-----------DEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNR-VSGGLE   81 (149)
T ss_dssp             CGGGCSEEECTTCB-CBTTBCCSCC-----------TTCTTCCEEECTTSCCCCCTTCCCCTTCCEEECCSSC-CCSCTH
T ss_pred             CCccCeEEEccCCc-CChhHHHHHH-----------hhcCCCcEEECcCCCCCCchhhhcCCCCCEEECCCCc-ccchHH
Confidence            34789999999985 44  455422           3589999999999988888778999999999998876 444 44


Q ss_pred             ccccccCcCcccCcccccccccceeeccccccccccC--CCCcCCCCccEEeecCCCCCCCCCC
Q 009534          423 SLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIY--PRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       423 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~--~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      .             .+..+++|++|+++++. ++.++  .....+++|+.|++++| .+..+|.
T Consensus        82 ~-------------~~~~l~~L~~L~ls~N~-i~~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~  130 (149)
T 2je0_A           82 V-------------LAEKCPNLTHLNLSGNK-IKDLSTIEPLKKLENLKSLDLFNC-EVTNLND  130 (149)
T ss_dssp             H-------------HHHHCTTCCEEECTTSC-CCSHHHHGGGGGCTTCCEEECTTC-GGGGSTT
T ss_pred             H-------------HhhhCCCCCEEECCCCc-CCChHHHHHHhhCCCCCEEeCcCC-cccchHH
Confidence            4             56669999999999974 67664  56778999999999998 5666654

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=98.60  E-value=2.3e-07  Score=99.80  Aligned_cols=53  Identities=21%  Similarity=0.140  Sum_probs=29.1

Q ss_pred             ccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecc
Q 009534          441 FARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       441 ~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      +++|+.|+++++ +++.+|.   .+++|+.|++++| +++.+|...... ++|+..+..
T Consensus       240 l~~L~~L~Ls~N-~L~~lp~---~~~~L~~L~Ls~N-~L~~lp~~l~~l-~~L~~L~L~  292 (622)
T 3g06_A          240 PSELKELMVSGN-RLTSLPM---LPSGLLSLSVYRN-QLTRLPESLIHL-SSETTVNLE  292 (622)
T ss_dssp             CTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSS-CCCSCCGGGGGS-CTTCEEECC
T ss_pred             CCcCcEEECCCC-CCCcCCc---ccccCcEEeCCCC-CCCcCCHHHhhc-cccCEEEec
Confidence            455666666654 4555554   4566667776666 555666543332 445554443

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=98.60  E-value=3.1e-07  Score=85.42  Aligned_cols=146  Identities=12%  Similarity=0.134  Sum_probs=106.9

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeee-cccCCccccccccCCCCCccEEEEeCCccccCCc--h
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI-DYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--L  401 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~-~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l  401 (532)
                      -+.+++++. .++.+|.. ++  +.++.|+++++ .+..++. ....          .+++|++|++++|+++.++.  +
T Consensus        13 ~~~l~~s~n-~l~~iP~~-~~--~~~~~L~L~~N-~l~~~~~~~~~~----------~l~~L~~L~L~~N~i~~i~~~~~   77 (220)
T 2v70_A           13 GTTVDCSNQ-KLNKIPEH-IP--QYTAELRLNNN-EFTVLEATGIFK----------KLPQLRKINFSNNKITDIEEGAF   77 (220)
T ss_dssp             TTEEECCSS-CCSSCCSC-CC--TTCSEEECCSS-CCCEECCCCCGG----------GCTTCCEEECCSSCCCEECTTTT
T ss_pred             CCEeEeCCC-CcccCccC-CC--CCCCEEEcCCC-cCCccCchhhhc----------cCCCCCEEECCCCcCCEECHHHh
Confidence            457787774 47888764 43  36789999986 5676643 3333          69999999999999888764  8


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc-CCCCcCCCCccEEeecCCCCCC
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-YPRALPFPHLKELHVTLCPKLK  480 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~~L~  480 (532)
                      ..+++|++|+++++. +..++.            ..+..+++|++|+++++ .+..+ +..+..+++|+.|+++++ +++
T Consensus        78 ~~l~~L~~L~Ls~N~-l~~~~~------------~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~~l~~L~~L~L~~N-~l~  142 (220)
T 2v70_A           78 EGASGVNEILLTSNR-LENVQH------------KMFKGLESLKTLMLRSN-RITCVGNDSFIGLSSVRLLSLYDN-QIT  142 (220)
T ss_dssp             TTCTTCCEEECCSSC-CCCCCG------------GGGTTCSSCCEEECTTS-CCCCBCTTSSTTCTTCSEEECTTS-CCC
T ss_pred             CCCCCCCEEECCCCc-cCccCH------------hHhcCCcCCCEEECCCC-cCCeECHhHcCCCccCCEEECCCC-cCC
Confidence            899999999998765 666654            25778999999999986 46666 445678999999999997 566


Q ss_pred             CC-CCCCCCCCCceeEEecchh
Q 009534          481 KL-PFDCTSGHERKLIIKGQEE  501 (532)
Q Consensus       481 ~l-p~~~~~~l~~L~~~~~~~~  501 (532)
                      .+ |..... +.+|+.++...+
T Consensus       143 ~~~~~~~~~-l~~L~~L~L~~N  163 (220)
T 2v70_A          143 TVAPGAFDT-LHSLSTLNLLAN  163 (220)
T ss_dssp             CBCTTTTTT-CTTCCEEECCSC
T ss_pred             EECHHHhcC-CCCCCEEEecCc
Confidence            66 444333 366666554443

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.57  E-value=2.7e-07  Score=82.56  Aligned_cols=124  Identities=13%  Similarity=0.189  Sum_probs=88.0

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hh
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LI  402 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~  402 (532)
                      .+.+++++. ++..+|.. +.  ++|+.|+++++ .+..++.....          .+++|++|++++|+++.++.  +.
T Consensus         9 ~~~l~~~~~-~l~~~p~~-~~--~~l~~L~l~~n-~l~~~~~~~~~----------~l~~L~~L~l~~n~l~~~~~~~~~   73 (177)
T 2o6r_A            9 GTEIRCNSK-GLTSVPTG-IP--SSATRLELESN-KLQSLPHGVFD----------KLTQLTKLSLSQNQIQSLPDGVFD   73 (177)
T ss_dssp             TTEEECCSS-CCSSCCTT-CC--TTCSEEECCSS-CCCCCCTTTTT----------TCTTCSEEECCSSCCCCCCTTTTT
T ss_pred             CCEEEecCC-CCccCCCC-CC--CCCcEEEeCCC-cccEeCHHHhc----------CcccccEEECCCCcceEeChhHcc
Confidence            456666653 46777643 32  57888888875 45555554433          57889999998888888765  57


Q ss_pred             cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCC-cCCCCccEEeecCCC
Q 009534          403 LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRA-LPFPHLKELHVTLCP  477 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C~  477 (532)
                      .+++|+.|+++++. +..++.            ..+..+++|++|+++++ .++.++... ..+++|+.|++.+++
T Consensus        74 ~l~~L~~L~l~~N~-l~~~~~------------~~~~~l~~L~~L~l~~N-~l~~~~~~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           74 KLTKLTILYLHENK-LQSLPN------------GVFDKLTQLKELALDTN-QLKSVPDGIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             TCTTCCEEECCSSC-CCCCCT------------TTTTTCTTCCEEECCSS-CCSCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CCCccCEEECCCCC-ccccCH------------HHhhCCcccCEEECcCC-cceEeCHHHhcCCcccCEEEecCCC
Confidence            78889999987754 565554            24567888999998886 677777754 458888888888874

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=98.57  E-value=1.3e-07  Score=103.46  Aligned_cols=158  Identities=16%  Similarity=0.221  Sum_probs=109.6

Q ss_pred             ccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCcc
Q 009534          294 KHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEV  373 (532)
Q Consensus       294 ~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~  373 (532)
                      ++++.|+++-..   +..++.  .....+++|++|+++++. +..++...+.++++|+.|+++++ .+..++.....   
T Consensus        25 ~~l~~L~Ls~n~---l~~~~~--~~~~~l~~L~~L~Ls~n~-l~~~~~~~~~~l~~L~~L~L~~n-~l~~l~~~~~~---   94 (680)
T 1ziw_A           25 TNITVLNLTHNQ---LRRLPA--ANFTRYSQLTSLDVGFNT-ISKLEPELCQKLPMLKVLNLQHN-ELSQLSDKTFA---   94 (680)
T ss_dssp             TTCSEEECCSSC---CCCCCG--GGGGGGTTCSEEECCSSC-CCCCCTTHHHHCTTCCEEECCSS-CCCCCCTTTTT---
T ss_pred             CCCcEEECCCCC---CCCcCH--HHHhCCCcCcEEECCCCc-cCccCHHHHhcccCcCEEECCCC-ccCccChhhhc---
Confidence            578888854222   122211  112235779999999864 66665566788899999999887 56666654333   


Q ss_pred             ccccccCCCCCccEEEEeCCccccCC--chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccc
Q 009534          374 KRIRETHGFFSLHKVSIWGSKLRHVT--WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGG  451 (532)
Q Consensus       374 ~~~~~~~~l~~L~~L~l~~c~L~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  451 (532)
                             .+++|++|++++|++..++  .+..+++|++|++++|. +..++.            ..+..+++|++|++.+
T Consensus        95 -------~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~-l~~~~~------------~~~~~l~~L~~L~L~~  154 (680)
T 1ziw_A           95 -------FCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNG-LSSTKL------------GTQVQLENLQELLLSN  154 (680)
T ss_dssp             -------TCTTCSEEECCSSCCCCCCSCTTTTCTTCCEEECCSSC-CSCCCC------------CSSSCCTTCCEEECCS
T ss_pred             -------cCCCCCEEECCCCccCccChhHccccCCCCEEECCCCc-ccccCc------------hhhcccccCCEEEccC
Confidence                   6899999999999888876  37889999999998875 444432            2567789999999998


Q ss_pred             cccccccCCC---CcCCCCccEEeecCCCCCCCCC
Q 009534          452 LENLRSIYPR---ALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       452 ~~~L~~i~~~---~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      + .++.++..   ...+++|+.|++++| +++.++
T Consensus       155 n-~l~~~~~~~~~~~~~~~L~~L~L~~n-~l~~~~  187 (680)
T 1ziw_A          155 N-KIQALKSEELDIFANSSLKKLELSSN-QIKEFS  187 (680)
T ss_dssp             S-CCCCBCHHHHGGGTTCEESEEECTTC-CCCCBC
T ss_pred             C-cccccCHHHhhccccccccEEECCCC-cccccC
Confidence            6 35555432   235689999999987 444443

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=98.55  E-value=5.5e-08  Score=97.88  Aligned_cols=130  Identities=15%  Similarity=0.153  Sum_probs=95.5

Q ss_pred             cccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCC-
Q 009534          321 IVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT-  399 (532)
Q Consensus       321 ~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~-  399 (532)
                      .+++|+.|+|+++ .+..++...+..+++|++|+++++ .++.++.....          .+++|++|+|++|.+..++ 
T Consensus        62 ~l~~L~~L~L~~N-~i~~i~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~----------~l~~L~~L~L~~N~i~~~~~  129 (361)
T 2xot_A           62 RLTNLHSLLLSHN-HLNFISSEAFVPVPNLRYLDLSSN-HLHTLDEFLFS----------DLQALEVLLLYNNHIVVVDR  129 (361)
T ss_dssp             CCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTT----------TCTTCCEEECCSSCCCEECT
T ss_pred             cccccCEEECCCC-cCCccChhhccCCCCCCEEECCCC-cCCcCCHHHhC----------CCcCCCEEECCCCcccEECH
Confidence            3577999999985 488888777889999999999986 57777665544          6899999999999888764 


Q ss_pred             -chhcCCCcceeeeccccccccccccccccCcCcccCccc---ccccccceeeccccccccccCC-CCcCCCC--ccEEe
Q 009534          400 -WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNL---IPFARLERLSLGGLENLRSIYP-RALPFPH--LKELH  472 (532)
Q Consensus       400 -~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~---~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~--L~~L~  472 (532)
                       .+..+++|+.|+++++. +..++.            ..+   ..+++|+.|+|+++ .++.++. ....++.  |+.|+
T Consensus       130 ~~~~~l~~L~~L~L~~N~-l~~l~~------------~~~~~~~~l~~L~~L~L~~N-~l~~l~~~~~~~l~~~~l~~l~  195 (361)
T 2xot_A          130 NAFEDMAQLQKLYLSQNQ-ISRFPV------------ELIKDGNKLPKLMLLDLSSN-KLKKLPLTDLQKLPAWVKNGLY  195 (361)
T ss_dssp             TTTTTCTTCCEEECCSSC-CCSCCG------------GGTC----CTTCCEEECCSS-CCCCCCHHHHHHSCHHHHTTEE
T ss_pred             HHhCCcccCCEEECCCCc-CCeeCH------------HHhcCcccCCcCCEEECCCC-CCCccCHHHhhhccHhhcceEE
Confidence             37889999999998754 666655            122   56899999999885 5666664 2334554  36666


Q ss_pred             ecCC
Q 009534          473 VTLC  476 (532)
Q Consensus       473 i~~C  476 (532)
                      +.+.
T Consensus       196 l~~N  199 (361)
T 2xot_A          196 LHNN  199 (361)
T ss_dssp             CCSS
T ss_pred             ecCC
Confidence            6653

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=98.51  E-value=2.6e-07  Score=98.25  Aligned_cols=134  Identities=17%  Similarity=0.128  Sum_probs=78.8

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL  401 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l  401 (532)
                      +++|+.|+++++ .++.+|.  ++.  +|+.|+++++ .+..+|.              .+++|++|++++|.++.+|. 
T Consensus        99 l~~L~~L~Ls~N-~l~~ip~--l~~--~L~~L~Ls~N-~l~~lp~--------------~l~~L~~L~Ls~N~l~~lp~-  157 (571)
T 3cvr_A           99 PASLEYLDACDN-RLSTLPE--LPA--SLKHLDVDNN-QLTMLPE--------------LPALLEYINADNNQLTMLPE-  157 (571)
T ss_dssp             CTTCCEEECCSS-CCSCCCC--CCT--TCCEEECCSS-CCSCCCC--------------CCTTCCEEECCSSCCSCCCC-
T ss_pred             cCCCCEEEccCC-CCCCcch--hhc--CCCEEECCCC-cCCCCCC--------------cCccccEEeCCCCccCcCCC-
Confidence            355777777775 3666664  443  7777777765 3444433              26677777777777776664 


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCc-------cEEeec
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHL-------KELHVT  474 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L-------~~L~i~  474 (532)
                       .+++|+.|++++|. +..++.              +.  ++|+.|+++++ +++.+|. +..  +|       +.|+++
T Consensus       158 -~l~~L~~L~Ls~N~-L~~lp~--------------l~--~~L~~L~Ls~N-~L~~lp~-~~~--~L~~~~~~L~~L~Ls  215 (571)
T 3cvr_A          158 -LPTSLEVLSVRNNQ-LTFLPE--------------LP--ESLEALDVSTN-LLESLPA-VPV--RNHHSEETEIFFRCR  215 (571)
T ss_dssp             -CCTTCCEEECCSSC-CSCCCC--------------CC--TTCCEEECCSS-CCSSCCC-CC----------CCEEEECC
T ss_pred             -cCCCcCEEECCCCC-CCCcch--------------hh--CCCCEEECcCC-CCCchhh-HHH--hhhcccccceEEecC
Confidence             56777777776654 444322              21  66777777765 4666665 222  55       777777


Q ss_pred             CCCCCCCCCCCCCCCCCceeEEecch
Q 009534          475 LCPKLKKLPFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       475 ~C~~L~~lp~~~~~~l~~L~~~~~~~  500 (532)
                      +| +++.+|..... +++|+..+...
T Consensus       216 ~N-~l~~lp~~l~~-l~~L~~L~L~~  239 (571)
T 3cvr_A          216 EN-RITHIPENILS-LDPTCTIILED  239 (571)
T ss_dssp             SS-CCCCCCGGGGG-SCTTEEEECCS
T ss_pred             CC-cceecCHHHhc-CCCCCEEEeeC
Confidence            65 56666664444 35555555443

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.50  E-value=4.7e-07  Score=82.41  Aligned_cols=121  Identities=14%  Similarity=0.149  Sum_probs=79.2

Q ss_pred             CeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hhc
Q 009534          326 PSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LIL  403 (532)
Q Consensus       326 ~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~  403 (532)
                      +.+++++ ..++.+|.. ++  ++|+.|++++. .++.+|...           ..+++|++|++++|.++.++.  +..
T Consensus        13 ~~l~~~~-~~l~~ip~~-~~--~~l~~L~L~~n-~i~~ip~~~-----------~~l~~L~~L~Ls~N~i~~i~~~~f~~   76 (193)
T 2wfh_A           13 TVVRCSN-KGLKVLPKG-IP--RDVTELYLDGN-QFTLVPKEL-----------SNYKHLTLIDLSNNRISTLSNQSFSN   76 (193)
T ss_dssp             TEEECTT-SCCSSCCSC-CC--TTCCEEECCSS-CCCSCCGGG-----------GGCTTCCEEECCSSCCCCCCTTTTTT
T ss_pred             CEEEcCC-CCCCcCCCC-CC--CCCCEEECCCC-cCchhHHHh-----------hcccCCCEEECCCCcCCEeCHhHccC
Confidence            4455555 346667643 33  47778887775 455555322           257788888888887777654  677


Q ss_pred             CCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC-CcCCCCccEEeecCC
Q 009534          404 APNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR-ALPFPHLKELHVTLC  476 (532)
Q Consensus       404 l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C  476 (532)
                      +++|++|+++++. +..++.            ..+..+++|+.|++.++ .+..++.. ...+++|+.|++.+.
T Consensus        77 l~~L~~L~Ls~N~-l~~i~~------------~~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N  136 (193)
T 2wfh_A           77 MTQLLTLILSYNR-LRCIPP------------RTFDGLKSLRLLSLHGN-DISVVPEGAFNDLSALSHLAIGAN  136 (193)
T ss_dssp             CTTCCEEECCSSC-CCBCCT------------TTTTTCTTCCEEECCSS-CCCBCCTTTTTTCTTCCEEECCSS
T ss_pred             CCCCCEEECCCCc-cCEeCH------------HHhCCCCCCCEEECCCC-CCCeeChhhhhcCccccEEEeCCC
Confidence            7888888887654 555544            25667788888888774 46677664 445777787777654

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.50  E-value=7.2e-08  Score=106.03  Aligned_cols=104  Identities=16%  Similarity=0.161  Sum_probs=71.4

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      +++|+.|+|+++. +..+|.. +..+++|++|+++++ .+..+|....           .+++|++|+|++|.++.+|. 
T Consensus       223 l~~L~~L~Ls~n~-l~~l~~~-~~~l~~L~~L~Ls~N-~l~~lp~~~~-----------~l~~L~~L~Ls~N~l~~lp~~  288 (727)
T 4b8c_D          223 DQLWHALDLSNLQ-IFNISAN-IFKYDFLTRLYLNGN-SLTELPAEIK-----------NLSNLRVLDLSHNRLTSLPAE  288 (727)
T ss_dssp             CCCCCEEECTTSC-CSCCCGG-GGGCCSCSCCBCTTS-CCSCCCGGGG-----------GGTTCCEEECTTSCCSSCCSS
T ss_pred             CCCCcEEECCCCC-CCCCChh-hcCCCCCCEEEeeCC-cCcccChhhh-----------CCCCCCEEeCcCCcCCccChh
Confidence            4567778877755 5666654 456777888887776 4555654332           47778888888777777764 


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccc
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLE  453 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  453 (532)
                      ++.+++|++|+|++| .+..++.             .+..+++|+.|+|++++
T Consensus       289 ~~~l~~L~~L~L~~N-~l~~lp~-------------~~~~l~~L~~L~L~~N~  327 (727)
T 4b8c_D          289 LGSCFQLKYFYFFDN-MVTTLPW-------------EFGNLCNLQFLGVEGNP  327 (727)
T ss_dssp             GGGGTTCSEEECCSS-CCCCCCS-------------STTSCTTCCCEECTTSC
T ss_pred             hcCCCCCCEEECCCC-CCCccCh-------------hhhcCCCccEEeCCCCc
Confidence            677777888888765 3566655             57777778888877764

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=98.49  E-value=4.3e-07  Score=94.23  Aligned_cols=109  Identities=17%  Similarity=0.103  Sum_probs=60.6

Q ss_pred             CCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccC------cCcccCcccccccccceeecccccccc
Q 009534          383 FSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGE------VPSEEMQNLIPFARLERLSLGGLENLR  456 (532)
Q Consensus       383 ~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~------~~~~~~~~~~~~~~L~~L~l~~~~~L~  456 (532)
                      ++|++|++++|.++.+|.+..+++|++|+++++. +..++.....-.      ........+..+++|+.|++.++ .+.
T Consensus       131 ~~L~~L~L~~n~l~~lp~~~~l~~L~~L~l~~N~-l~~lp~~~~~L~~L~L~~n~l~~l~~~~~l~~L~~L~l~~N-~l~  208 (454)
T 1jl5_A          131 PLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNS-LKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNN-SLK  208 (454)
T ss_dssp             TTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSC-CSCCCCCCTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSS-CCS
T ss_pred             CCCCEEECcCCCCCCCcccCCCCCCCEEECCCCc-CcccCCCcccccEEECcCCcCCcCccccCCCCCCEEECCCC-cCC
Confidence            5777777777766667767777777777776653 444432110000      00000013556677777777765 355


Q ss_pred             ccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecc
Q 009534          457 SIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       457 ~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      .+|..   .++|+.|++++| ++..+|. ... +..|+..+..
T Consensus       209 ~l~~~---~~~L~~L~l~~n-~l~~lp~-~~~-l~~L~~L~l~  245 (454)
T 1jl5_A          209 KLPDL---PLSLESIVAGNN-ILEELPE-LQN-LPFLTTIYAD  245 (454)
T ss_dssp             SCCCC---CTTCCEEECCSS-CCSSCCC-CTT-CTTCCEEECC
T ss_pred             cCCCC---cCcccEEECcCC-cCCcccc-cCC-CCCCCEEECC
Confidence            55432   257888888877 5667774 222 3555555444

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=98.49  E-value=2.9e-07  Score=82.39  Aligned_cols=106  Identities=16%  Similarity=0.155  Sum_probs=85.4

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|+.|+++++. +..++...+..+++|++|+++++ .+..++.....          .+++|++|++++|+++.++.  
T Consensus        28 ~~l~~L~l~~n~-l~~~~~~~~~~l~~L~~L~l~~n-~l~~~~~~~~~----------~l~~L~~L~l~~N~l~~~~~~~   95 (177)
T 2o6r_A           28 SSATRLELESNK-LQSLPHGVFDKLTQLTKLSLSQN-QIQSLPDGVFD----------KLTKLTILYLHENKLQSLPNGV   95 (177)
T ss_dssp             TTCSEEECCSSC-CCCCCTTTTTTCTTCSEEECCSS-CCCCCCTTTTT----------TCTTCCEEECCSSCCCCCCTTT
T ss_pred             CCCcEEEeCCCc-ccEeCHHHhcCcccccEEECCCC-cceEeChhHcc----------CCCccCEEECCCCCccccCHHH
Confidence            459999999965 78887776788999999999986 56666655433          68999999999998888765  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccc
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLE  453 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  453 (532)
                      +..+++|+.|+++++ .+..++.            ..+..+++|++|++.+++
T Consensus        96 ~~~l~~L~~L~l~~N-~l~~~~~------------~~~~~l~~L~~L~l~~N~  135 (177)
T 2o6r_A           96 FDKLTQLKELALDTN-QLKSVPD------------GIFDRLTSLQKIWLHTNP  135 (177)
T ss_dssp             TTTCTTCCEEECCSS-CCSCCCT------------TTTTTCTTCCEEECCSSC
T ss_pred             hhCCcccCEEECcCC-cceEeCH------------HHhcCCcccCEEEecCCC
Confidence            678999999999876 4676665            245678999999998875

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=98.47  E-value=7.4e-07  Score=95.86  Aligned_cols=153  Identities=23%  Similarity=0.218  Sum_probs=91.8

Q ss_pred             ccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCcc
Q 009534          294 KHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEV  373 (532)
Q Consensus       294 ~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~  373 (532)
                      ++|+.|+++  .+ .+..++.      .+++|++|++++|. ++.+|.    .+++|++|+++++ .+..++.       
T Consensus        61 ~~L~~L~L~--~N-~l~~lp~------~l~~L~~L~Ls~N~-l~~lp~----~l~~L~~L~Ls~N-~l~~l~~-------  118 (622)
T 3g06_A           61 AHITTLVIP--DN-NLTSLPA------LPPELRTLEVSGNQ-LTSLPV----LPPGLLELSIFSN-PLTHLPA-------  118 (622)
T ss_dssp             TTCSEEEEC--SC-CCSCCCC------CCTTCCEEEECSCC-CSCCCC----CCTTCCEEEECSC-CCCCCCC-------
T ss_pred             CCCcEEEec--CC-CCCCCCC------cCCCCCEEEcCCCc-CCcCCC----CCCCCCEEECcCC-cCCCCCC-------
Confidence            678888854  33 2233332      24669999999865 777765    4678899999876 4555544       


Q ss_pred             ccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCccc----ccccccceeec
Q 009534          374 KRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNL----IPFARLERLSL  449 (532)
Q Consensus       374 ~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~----~~~~~L~~L~l  449 (532)
                             .+++|++|++++|+++.+|.  .+++|++|++++|. +..++.....-..-.-....+    ..+++|+.|++
T Consensus       119 -------~l~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~-l~~l~~~~~~L~~L~L~~N~l~~l~~~~~~L~~L~L  188 (622)
T 3g06_A          119 -------LPSGLCKLWIFGNQLTSLPV--LPPGLQELSVSDNQ-LASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSV  188 (622)
T ss_dssp             -------CCTTCCEEECCSSCCSCCCC--CCTTCCEEECCSSC-CSCCCCCCTTCCEEECCSSCCSCCCCCCTTCCEEEC
T ss_pred             -------CCCCcCEEECCCCCCCcCCC--CCCCCCEEECcCCc-CCCcCCccCCCCEEECCCCCCCCCcccCCCCcEEEC
Confidence                   36788888888888888874  45888888888763 555543110000000000000    22478888888


Q ss_pred             cccccccccCCCCcCCCCccEEeecCCCCCCCCC
Q 009534          450 GGLENLRSIYPRALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       450 ~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      +++ .++.+|..   +++|+.|++.+| ++..+|
T Consensus       189 s~N-~l~~l~~~---~~~L~~L~L~~N-~l~~l~  217 (622)
T 3g06_A          189 SDN-QLASLPTL---PSELYKLWAYNN-RLTSLP  217 (622)
T ss_dssp             CSS-CCSCCCCC---CTTCCEEECCSS-CCSSCC
T ss_pred             CCC-CCCCCCCc---cchhhEEECcCC-cccccC
Confidence            875 46666542   356666666654 344444

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=98.46  E-value=4e-07  Score=82.87  Aligned_cols=105  Identities=13%  Similarity=0.201  Sum_probs=84.6

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|+.|+++++ .++.+| ..+.++++|+.|+++++ .+..++.....          .+++|++|++++|.++.++.  
T Consensus        31 ~~l~~L~L~~n-~i~~ip-~~~~~l~~L~~L~Ls~N-~i~~i~~~~f~----------~l~~L~~L~Ls~N~l~~i~~~~   97 (193)
T 2wfh_A           31 RDVTELYLDGN-QFTLVP-KELSNYKHLTLIDLSNN-RISTLSNQSFS----------NMTQLLTLILSYNRLRCIPPRT   97 (193)
T ss_dssp             TTCCEEECCSS-CCCSCC-GGGGGCTTCCEEECCSS-CCCCCCTTTTT----------TCTTCCEEECCSSCCCBCCTTT
T ss_pred             CCCCEEECCCC-cCchhH-HHhhcccCCCEEECCCC-cCCEeCHhHcc----------CCCCCCEEECCCCccCEeCHHH
Confidence            45999999985 478888 45889999999999986 56666654443          68999999999999888765  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccc
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLE  453 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  453 (532)
                      +..+++|+.|+++++. +..++.            ..+..+++|+.|++.+.+
T Consensus        98 f~~l~~L~~L~L~~N~-l~~~~~------------~~~~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           98 FDGLKSLRLLSLHGND-ISVVPE------------GAFNDLSALSHLAIGANP  137 (193)
T ss_dssp             TTTCTTCCEEECCSSC-CCBCCT------------TTTTTCTTCCEEECCSSC
T ss_pred             hCCCCCCCEEECCCCC-CCeeCh------------hhhhcCccccEEEeCCCC
Confidence            7889999999998754 666655            256778999999998754

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.44  E-value=8.2e-07  Score=80.65  Aligned_cols=124  Identities=16%  Similarity=0.201  Sum_probs=81.7

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeec-ccCCccccccccCCCCCccEEEEeCCccccCC--ch
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEID-YAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT--WL  401 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~-~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~--~l  401 (532)
                      -+.+++++. .++.+|.. ++.  +|+.|++++. .+..++.. ...          .+++|++|++++|.++.++  .+
T Consensus        10 ~~~l~~s~~-~l~~ip~~-~~~--~l~~L~l~~n-~i~~~~~~~~~~----------~l~~L~~L~Ls~N~l~~~~~~~~   74 (192)
T 1w8a_A           10 GTTVDCTGR-GLKEIPRD-IPL--HTTELLLNDN-ELGRISSDGLFG----------RLPHLVKLELKRNQLTGIEPNAF   74 (192)
T ss_dssp             TTEEECTTS-CCSSCCSC-CCT--TCSEEECCSC-CCCSBCCSCSGG----------GCTTCCEEECCSSCCCCBCTTTT
T ss_pred             CCEEEcCCC-CcCcCccC-CCC--CCCEEECCCC-cCCccCCccccc----------cCCCCCEEECCCCCCCCcCHhHc
Confidence            356666663 46777754 332  7788888775 45555442 222          5788888888888777753  26


Q ss_pred             hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc-CCCCcCCCCccEEeecCCC
Q 009534          402 ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-YPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       402 ~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~  477 (532)
                      ..+++|+.|+++++. +..++.            ..+..+++|++|+++++ ++..+ |.....+++|+.|++.+.+
T Consensus        75 ~~l~~L~~L~Ls~N~-l~~~~~------------~~~~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           75 EGASHIQELQLGENK-IKEISN------------KMFLGLHQLKTLNLYDN-QISCVMPGSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             TTCTTCCEEECCSCC-CCEECS------------SSSTTCTTCCEEECCSS-CCCEECTTSSTTCTTCCEEECTTCC
T ss_pred             CCcccCCEEECCCCc-CCccCH------------HHhcCCCCCCEEECCCC-cCCeeCHHHhhcCCCCCEEEeCCCC
Confidence            778888888887654 555544            24667788888888875 45544 4455667888888887753

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=98.43  E-value=9.2e-08  Score=97.06  Aligned_cols=34  Identities=18%  Similarity=0.213  Sum_probs=16.6

Q ss_pred             cCCCeEEEecCCCCCc-----cccccccccccccceeeccc
Q 009534          323 SNTPSLSLTNCRSLSS-----LSVLTLASLRHLEALDMRYC  358 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~-----l~~~~l~~l~~L~~L~i~~c  358 (532)
                      ++|++|+++++. +..     ++.. +..+++|+.|++++|
T Consensus        94 ~~L~~L~Ls~n~-l~~~~~~~l~~~-l~~~~~L~~L~L~~n  132 (386)
T 2ca6_A           94 PKLHTVRLSDNA-FGPTAQEPLIDF-LSKHTPLEHLYLHNN  132 (386)
T ss_dssp             TTCCEEECCSCC-CCTTTHHHHHHH-HHHCTTCCEEECCSS
T ss_pred             CcccEEECCCCc-CCHHHHHHHHHH-HHhCCCCCEEECcCC
Confidence            446666665543 332     2221 444555555555554

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=98.43  E-value=4.5e-07  Score=97.88  Aligned_cols=149  Identities=15%  Similarity=0.145  Sum_probs=94.3

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC-ccccC-C
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRHV-T  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~l-~  399 (532)
                      +++|+.+++..+......+...+..+++|+.++++.+ .+..++...          ...+++|+.|++++| ....+ |
T Consensus       419 l~~L~~l~l~~~~~~~~~~~~~~~~l~~l~~l~ls~n-~l~~~~~~~----------~~~~~~L~~L~Ls~N~~~~~~~~  487 (635)
T 4g8a_A          419 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGI----------FNGLSSLEVLKMAGNSFQENFLP  487 (635)
T ss_dssp             CTTCCEEECTTSEEESTTSSCTTTTCTTCCEEECTTS-CCEECCTTT----------TTTCTTCCEEECTTCEEGGGEEC
T ss_pred             cccccchhhhhcccccccccccccccccccccccccc-ccccccccc----------cccchhhhhhhhhhcccccccCc
Confidence            3445555555544333334334555666666666654 333333322          236788999999988 45543 3


Q ss_pred             -chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC-CcCCCCccEEeecCCC
Q 009534          400 -WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR-ALPFPHLKELHVTLCP  477 (532)
Q Consensus       400 -~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~  477 (532)
                       .+..+++|++|++++|. +..+++            ..+..+++|++|+|+++ +++.++.. ...+++|+.|+++++.
T Consensus       488 ~~~~~l~~L~~L~Ls~N~-L~~l~~------------~~f~~l~~L~~L~Ls~N-~l~~l~~~~~~~l~~L~~L~Ls~N~  553 (635)
T 4g8a_A          488 DIFTELRNLTFLDLSQCQ-LEQLSP------------TAFNSLSSLQVLNMSHN-NFFSLDTFPYKCLNSLQVLDYSLNH  553 (635)
T ss_dssp             SCCTTCTTCCEEECTTSC-CCEECT------------TTTTTCTTCCEEECTTS-CCCBCCCGGGTTCTTCCEEECTTSC
T ss_pred             hhhhhccccCEEECCCCc-cCCcCh------------HHHcCCCCCCEEECCCC-cCCCCChhHHhCCCCCCEEECCCCc
Confidence             26788999999998874 666654            36788899999999986 67777664 4568999999999874


Q ss_pred             CCCCC-CCCCCCCCCceeEE
Q 009534          478 KLKKL-PFDCTSGHERKLII  496 (532)
Q Consensus       478 ~L~~l-p~~~~~~l~~L~~~  496 (532)
                       +..+ |........+|+..
T Consensus       554 -l~~~~~~~l~~l~~~L~~L  572 (635)
T 4g8a_A          554 -IMTSKKQELQHFPSSLAFL  572 (635)
T ss_dssp             -CCBCCSSCTTCCCTTCCEE
T ss_pred             -CCCCCHHHHHhhhCcCCEE
Confidence             4444 43333222344443

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.43  E-value=6.7e-09  Score=95.10  Aligned_cols=79  Identities=15%  Similarity=0.169  Sum_probs=39.3

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL  401 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l  401 (532)
                      +++|++|+++++. +..+|  .+..+++|+.|+++++ .+..+|...           ..+++|++|++++|+++.+|.+
T Consensus        47 l~~L~~L~ls~n~-l~~l~--~~~~l~~L~~L~l~~n-~l~~l~~~~-----------~~~~~L~~L~L~~N~l~~l~~~  111 (198)
T 1ds9_A           47 LKACKHLALSTNN-IEKIS--SLSGMENLRILSLGRN-LIKKIENLD-----------AVADTLEELWISYNQIASLSGI  111 (198)
T ss_dssp             TTTCSEEECSEEE-ESCCC--CHHHHTTCCEEEEEEE-EECSCSSHH-----------HHHHHCSEEEEEEEECCCHHHH
T ss_pred             CCCCCEEECCCCC-Ccccc--ccccCCCCCEEECCCC-Ccccccchh-----------hcCCcCCEEECcCCcCCcCCcc
Confidence            3445555555542 44444  2555555555555554 233333211           1245555555555555555555


Q ss_pred             hcCCCcceeeeccc
Q 009534          402 ILAPNLKLIQMYDC  415 (532)
Q Consensus       402 ~~l~~L~~L~l~~c  415 (532)
                      ..+++|+.|+++++
T Consensus       112 ~~l~~L~~L~l~~N  125 (198)
T 1ds9_A          112 EKLVNLRVLYMSNN  125 (198)
T ss_dssp             HHHHHSSEEEESEE
T ss_pred             ccCCCCCEEECCCC
Confidence            55555555555544

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.43  E-value=1.2e-08  Score=108.94  Aligned_cols=76  Identities=17%  Similarity=0.168  Sum_probs=35.9

Q ss_pred             ccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcC
Q 009534          385 LHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALP  464 (532)
Q Consensus       385 L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~  464 (532)
                      |+.|++++|+++.+|.++.+++|+.|+++++. +..+|.             .+..+++|+.|+++++ .++.+| .+..
T Consensus       443 L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~-l~~lp~-------------~~~~l~~L~~L~Ls~N-~l~~lp-~l~~  506 (567)
T 1dce_A          443 VRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNR-LRALPP-------------ALAALRCLEVLQASDN-ALENVD-GVAN  506 (567)
T ss_dssp             CSEEECTTSCCSSCCCGGGGTTCCEEECCSSC-CCCCCG-------------GGGGCTTCCEEECCSS-CCCCCG-GGTT
T ss_pred             ceEEEecCCCCCCCcCccccccCcEeecCccc-ccccch-------------hhhcCCCCCEEECCCC-CCCCCc-ccCC
Confidence            44555555544444444445555555554432 334433             4444555555555443 344444 3444


Q ss_pred             CCCccEEeecCC
Q 009534          465 FPHLKELHVTLC  476 (532)
Q Consensus       465 ~p~L~~L~i~~C  476 (532)
                      +++|+.|++++|
T Consensus       507 l~~L~~L~Ls~N  518 (567)
T 1dce_A          507 LPRLQELLLCNN  518 (567)
T ss_dssp             CSSCCEEECCSS
T ss_pred             CCCCcEEECCCC
Confidence            455555555443

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=98.41  E-value=7.7e-07  Score=90.89  Aligned_cols=107  Identities=14%  Similarity=0.085  Sum_probs=76.1

Q ss_pred             CcccccHHHHHHHHHHh-c----c--CCceEEEE--ecCCCCcHHHHHHHHHHhccCCC---CCCC-eEEEEEeCCCCCH
Q 009534          147 PTVVGLQSTLDRVWRCL-T----E--EPVGIVGL--YGMGGVGKTTLLTQINNSFLHTP---NNFD-FVIWEVVSRDLQL  213 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L-~----~--~~~~vi~I--~G~gGiGKTtLa~~v~~~~~~~~---~~F~-~~~wv~v~~~~~~  213 (532)
                      +.++||+++++.+.+++ .    .  .....+.|  +|++|+||||||+.+++.. ...   ..|+ .++|+.+....+.
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV-SEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHH-HHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHH-HHHHhccCCceeEEEEECCCCCCH
Confidence            57899999999999988 3    1  24455666  9999999999999999876 211   0122 3577777677788


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhc--CCcEEEe
Q 009534          214 GKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMR--NTKFLIS  255 (532)
Q Consensus       214 ~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlV  255 (532)
                      ..+...++.+++..... ...+.......+.+.+.  +++++||
T Consensus       101 ~~~~~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~llv  143 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVI  143 (412)
T ss_dssp             HHHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEE
T ss_pred             HHHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            99999999998764321 23345566666777664  5566665

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.39  E-value=9.9e-08  Score=84.62  Aligned_cols=88  Identities=16%  Similarity=0.200  Sum_probs=40.6

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCcccccccc-CCCCCccEEEEeCC-cccc--CCc
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRET-HGFFSLHKVSIWGS-KLRH--VTW  400 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~-~~l~~L~~L~l~~c-~L~~--l~~  400 (532)
                      |+.|++++|. ++..-...+..+++|+.|++++|..+++-......       .. ...++|++|+|++| +++.  +..
T Consensus        63 L~~LDLs~~~-Itd~GL~~L~~~~~L~~L~L~~C~~ItD~gL~~L~-------~~~~~~~~L~~L~Ls~C~~ITD~Gl~~  134 (176)
T 3e4g_A           63 IQAIDATDSC-IMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLS-------QLENLQKSMLEMEIISCGNVTDKGIIA  134 (176)
T ss_dssp             EEEEEEESCC-CCGGGGGGGTTCSCCCEEEEESCTTCCHHHHHHHH-------TCHHHHHHCCEEEEESCTTCCHHHHHH
T ss_pred             EeEEeCcCCC-ccHHHHHHhcCCCCCCEEEeCCCCccCHHHHHHHH-------hcccccCCCCEEEcCCCCcCCHHHHHH
Confidence            5556666554 44443333445555555555555544432211111       00 00124555555555 5554  333


Q ss_pred             hhcCCCcceeeecccccccc
Q 009534          401 LILAPNLKLIQMYDCRCLEE  420 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~  420 (532)
                      +..+++|++|+|++|+.+.+
T Consensus       135 L~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          135 LHHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             GGGCTTCCEEEEESCTTCCC
T ss_pred             HhcCCCCCEEECCCCCCCCc
Confidence            44455555555555554443

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=98.36  E-value=5.3e-07  Score=99.11  Aligned_cols=119  Identities=14%  Similarity=0.083  Sum_probs=93.8

Q ss_pred             cccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-hhcCCCcceeeeccccc
Q 009534          339 LSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LILAPNLKLIQMYDCRC  417 (532)
Q Consensus       339 l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~~l~~L~~L~l~~c~~  417 (532)
                      ++...+..+++|+.|+++++. +..++....           .+++|++|+|++|.++.+|. +..+++|+.|+|+++. 
T Consensus       215 ~~~~~~~~l~~L~~L~Ls~n~-l~~l~~~~~-----------~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~-  281 (727)
T 4b8c_D          215 MPKDSKYDDQLWHALDLSNLQ-IFNISANIF-----------KYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-  281 (727)
T ss_dssp             -------CCCCCCEEECTTSC-CSCCCGGGG-----------GCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSC-
T ss_pred             cChhhhccCCCCcEEECCCCC-CCCCChhhc-----------CCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCc-
Confidence            344457888999999999874 556766554           48999999999998888886 8899999999998876 


Q ss_pred             cccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          418 LEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       418 l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                      +..++.             .+..+++|++|+|+++ .++.+|..++.+++|+.|++++++--..+|.
T Consensus       282 l~~lp~-------------~~~~l~~L~~L~L~~N-~l~~lp~~~~~l~~L~~L~L~~N~l~~~~p~  334 (727)
T 4b8c_D          282 LTSLPA-------------ELGSCFQLKYFYFFDN-MVTTLPWEFGNLCNLQFLGVEGNPLEKQFLK  334 (727)
T ss_dssp             CSSCCS-------------SGGGGTTCSEEECCSS-CCCCCCSSTTSCTTCCCEECTTSCCCSHHHH
T ss_pred             CCccCh-------------hhcCCCCCCEEECCCC-CCCccChhhhcCCCccEEeCCCCccCCCChH
Confidence            667766             7888999999999987 6889998888999999999999864444443

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=98.35  E-value=5.8e-07  Score=95.56  Aligned_cols=149  Identities=16%  Similarity=0.065  Sum_probs=104.6

Q ss_pred             cCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccC
Q 009534          291 LGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAG  370 (532)
Q Consensus       291 ~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~  370 (532)
                      ..+++|+.|+++  .+ .+..++.   +..   +|+.|+++++. +..+|.    .+++|+.|+++++ .+..+|.    
T Consensus        97 ~~l~~L~~L~Ls--~N-~l~~ip~---l~~---~L~~L~Ls~N~-l~~lp~----~l~~L~~L~Ls~N-~l~~lp~----  157 (571)
T 3cvr_A           97 ELPASLEYLDAC--DN-RLSTLPE---LPA---SLKHLDVDNNQ-LTMLPE----LPALLEYINADNN-QLTMLPE----  157 (571)
T ss_dssp             CCCTTCCEEECC--SS-CCSCCCC---CCT---TCCEEECCSSC-CSCCCC----CCTTCCEEECCSS-CCSCCCC----
T ss_pred             cccCCCCEEEcc--CC-CCCCcch---hhc---CCCEEECCCCc-CCCCCC----cCccccEEeCCCC-ccCcCCC----
Confidence            346788888854  33 2222333   111   59999999964 777775    5789999999986 4655544    


Q ss_pred             CccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecc
Q 009534          371 GEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLG  450 (532)
Q Consensus       371 ~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~  450 (532)
                                .+++|++|++++|+++.+|.+.  ++|+.|+++++ .+..++. ... .       -....+.|+.|+++
T Consensus       158 ----------~l~~L~~L~Ls~N~L~~lp~l~--~~L~~L~Ls~N-~L~~lp~-~~~-~-------L~~~~~~L~~L~Ls  215 (571)
T 3cvr_A          158 ----------LPTSLEVLSVRNNQLTFLPELP--ESLEALDVSTN-LLESLPA-VPV-R-------NHHSEETEIFFRCR  215 (571)
T ss_dssp             ----------CCTTCCEEECCSSCCSCCCCCC--TTCCEEECCSS-CCSSCCC-CC----------------CCEEEECC
T ss_pred             ----------cCCCcCEEECCCCCCCCcchhh--CCCCEEECcCC-CCCchhh-HHH-h-------hhcccccceEEecC
Confidence                      3789999999999999988733  89999999876 4666643 000 0       01112334999999


Q ss_pred             ccccccccCCCCcCCCCccEEeecCCCCCCC
Q 009534          451 GLENLRSIYPRALPFPHLKELHVTLCPKLKK  481 (532)
Q Consensus       451 ~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~  481 (532)
                      ++ .++.+|..++.+++|+.|++++++--..
T Consensus       216 ~N-~l~~lp~~l~~l~~L~~L~L~~N~l~~~  245 (571)
T 3cvr_A          216 EN-RITHIPENILSLDPTCTIILEDNPLSSR  245 (571)
T ss_dssp             SS-CCCCCCGGGGGSCTTEEEECCSSSCCHH
T ss_pred             CC-cceecCHHHhcCCCCCEEEeeCCcCCCc
Confidence            86 6889998888899999999999875433

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.35  E-value=1.7e-06  Score=85.59  Aligned_cols=35  Identities=9%  Similarity=0.141  Sum_probs=26.7

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccc
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYC  358 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c  358 (532)
                      +++|+.|.+.+  .++.++...|.++++|+.|.+.+.
T Consensus       100 ~~~L~~l~L~~--~i~~I~~~aF~~~~~L~~l~l~~n  134 (329)
T 3sb4_A          100 KQTLEKVILSE--KIKNIEDAAFKGCDNLKICQIRKK  134 (329)
T ss_dssp             CTTCCC-CBCT--TCCEECTTTTTTCTTCCEEEBCCS
T ss_pred             cCCCcEEECCc--cccchhHHHhhcCcccceEEcCCC
Confidence            47788888887  688888777888888888888653

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=98.34  E-value=5.1e-08  Score=89.16  Aligned_cols=124  Identities=12%  Similarity=0.189  Sum_probs=95.5

Q ss_pred             CCeEEEecC-CCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-hh
Q 009534          325 TPSLSLTNC-RSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LI  402 (532)
Q Consensus       325 L~~L~l~~c-~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~  402 (532)
                      |+.+.+.+. +.++.+|.. +..+++|++|+++++ .+..++ ..           ..+++|++|++++|.++.+|. +.
T Consensus        25 l~~~~l~~~~~~l~~l~~~-~~~l~~L~~L~ls~n-~l~~l~-~~-----------~~l~~L~~L~l~~n~l~~l~~~~~   90 (198)
T 1ds9_A           25 AEKVELHGMIPPIEKMDAT-LSTLKACKHLALSTN-NIEKIS-SL-----------SGMENLRILSLGRNLIKKIENLDA   90 (198)
T ss_dssp             CSEEECCBCCTTCCCCHHH-HHHTTTCSEEECSEE-EESCCC-CH-----------HHHTTCCEEEEEEEEECSCSSHHH
T ss_pred             hheeEeccccCcHhhhhHH-HhcCCCCCEEECCCC-CCcccc-cc-----------ccCCCCCEEECCCCCcccccchhh
Confidence            666677654 346777753 888999999999987 566565 22           358999999999998888876 55


Q ss_pred             cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC--CCcCCCCccEEeecCCCC
Q 009534          403 LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP--RALPFPHLKELHVTLCPK  478 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~--~~~~~p~L~~L~i~~C~~  478 (532)
                      .+++|+.|++++| .+..++              .+..+++|+.|++.++ .+..++.  ....+++|+.|++.+|+-
T Consensus        91 ~~~~L~~L~L~~N-~l~~l~--------------~~~~l~~L~~L~l~~N-~i~~~~~~~~l~~l~~L~~L~l~~N~l  152 (198)
T 1ds9_A           91 VADTLEELWISYN-QIASLS--------------GIEKLVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             HHHHCSEEEEEEE-ECCCHH--------------HHHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSCHH
T ss_pred             cCCcCCEEECcCC-cCCcCC--------------ccccCCCCCEEECCCC-cCCchhHHHHHhcCCCCCEEEecCCcc
Confidence            6799999999887 466653              3667899999999986 4665543  456799999999999864

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.33  E-value=1.6e-07  Score=83.30  Aligned_cols=64  Identities=16%  Similarity=0.243  Sum_probs=30.3

Q ss_pred             CCCCccEEEEeCC-cccc--CCchhcC----CCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccc
Q 009534          381 GFFSLHKVSIWGS-KLRH--VTWLILA----PNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLE  453 (532)
Q Consensus       381 ~l~~L~~L~l~~c-~L~~--l~~l~~l----~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  453 (532)
                      .+++|++|+|++| .++.  +..+..+    ++|++|+|++|+++++-..            ..+..+++|++|++++|+
T Consensus        83 ~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl------------~~L~~~~~L~~L~L~~c~  150 (176)
T 3e4g_A           83 GLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGI------------IALHHFRNLKYLFLSDLP  150 (176)
T ss_dssp             TCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHH------------HHGGGCTTCCEEEEESCT
T ss_pred             CCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHH------------HHHhcCCCCCEEECCCCC
Confidence            4555555555555 5544  2223322    3455555555555444322            123344555555555555


Q ss_pred             ccc
Q 009534          454 NLR  456 (532)
Q Consensus       454 ~L~  456 (532)
                      +++
T Consensus       151 ~It  153 (176)
T 3e4g_A          151 GVK  153 (176)
T ss_dssp             TCC
T ss_pred             CCC
Confidence            444

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=98.30  E-value=1.2e-06  Score=79.50  Aligned_cols=105  Identities=19%  Similarity=0.307  Sum_probs=81.4

Q ss_pred             CCCeEEEecCCCCCccccc-cccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          324 NTPSLSLTNCRSLSSLSVL-TLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~-~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      +|+.|+++++ .+..++.. .+..+++|++|+++++ .++.++.....          .+++|++|++++|+++.++.  
T Consensus        30 ~l~~L~l~~n-~i~~~~~~~~~~~l~~L~~L~Ls~N-~l~~~~~~~~~----------~l~~L~~L~Ls~N~l~~~~~~~   97 (192)
T 1w8a_A           30 HTTELLLNDN-ELGRISSDGLFGRLPHLVKLELKRN-QLTGIEPNAFE----------GASHIQELQLGENKIKEISNKM   97 (192)
T ss_dssp             TCSEEECCSC-CCCSBCCSCSGGGCTTCCEEECCSS-CCCCBCTTTTT----------TCTTCCEEECCSCCCCEECSSS
T ss_pred             CCCEEECCCC-cCCccCCccccccCCCCCEEECCCC-CCCCcCHhHcC----------CcccCCEEECCCCcCCccCHHH
Confidence            5999999986 47777654 3788999999999986 56655444433          68999999999998888654  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccc
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLE  453 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  453 (532)
                      +..+++|++|+++++. +..++.            ..+..+++|++|++.+.+
T Consensus        98 ~~~l~~L~~L~L~~N~-l~~~~~------------~~~~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           98 FLGLHQLKTLNLYDNQ-ISCVMP------------GSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             STTCTTCCEEECCSSC-CCEECT------------TSSTTCTTCCEEECTTCC
T ss_pred             hcCCCCCCEEECCCCc-CCeeCH------------HHhhcCCCCCEEEeCCCC
Confidence            7789999999998764 555533            267788999999998864

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=98.30  E-value=6.1e-08  Score=104.07  Aligned_cols=131  Identities=16%  Similarity=0.202  Sum_probs=76.7

Q ss_pred             ccCCCeEEEecCCCCCcccccccc-ccccccceeeccccCcceeee-cccCCccccccccCCCCCccEEEEeCCccccCC
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLA-SLRHLEALDMRYCKDLEEMEI-DYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT  399 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~-~l~~L~~L~i~~c~~L~~l~~-~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~  399 (532)
                      +++|++|++++|. +.......+. .+++|+.|++.+|..+..... ...          ..+++|++|++++|.+....
T Consensus       104 ~~~L~~L~L~~~~-~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~----------~~~~~L~~L~L~~~~i~~~~  172 (594)
T 2p1m_B          104 YTWLEEIRLKRMV-VTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIA----------ATCRNLKELDLRESDVDDVS  172 (594)
T ss_dssp             CTTCCEEEEESCB-CCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHH----------HHCTTCCEEECTTCEEECCC
T ss_pred             CCCCCeEEeeCcE-EcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHH----------HhCCCCCEEeCcCCccCCcc
Confidence            5678888888875 4443333343 578888888888864443111 111          14778888888888654421


Q ss_pred             --ch----hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEee
Q 009534          400 --WL----ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHV  473 (532)
Q Consensus       400 --~l----~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i  473 (532)
                        ++    ..+++|+.|++++|.  ..+....    .    ..-...+++|++|++.+|..+..++.....+++|+.|.+
T Consensus       173 ~~~l~~~~~~~~~L~~L~l~~~~--~~~~~~~----l----~~l~~~~~~L~~L~L~~~~~~~~l~~~~~~~~~L~~L~l  242 (594)
T 2p1m_B          173 GHWLSHFPDTYTSLVSLNISCLA--SEVSFSA----L----ERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGT  242 (594)
T ss_dssp             GGGGGGSCTTCCCCCEEECTTCC--SCCCHHH----H----HHHHHHCTTCCEEECCTTSCHHHHHHHHHHCTTCSEEEC
T ss_pred             hHHHHHHhhcCCcCcEEEecccC--CcCCHHH----H----HHHHHhCCCCcEEecCCCCcHHHHHHHHhcCCcceEccc
Confidence              12    356688888887765  1111100    0    001233688888888877666665555555667777753

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=98.19  E-value=1.8e-07  Score=94.92  Aligned_cols=173  Identities=17%  Similarity=0.123  Sum_probs=104.6

Q ss_pred             chhhhcCCccCceeeEEeccchh--HHHhhcCCcccccc---------cCCCeEEEecCCCCC--cccc--ccccccccc
Q 009534          286 LVEELLGLKHLNVLTITLHSFAA--LQRLLTYPSLQSIV---------SNTPSLSLTNCRSLS--SLSV--LTLASLRHL  350 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~--l~~l~~~~~~~~~l---------~~L~~L~l~~c~~l~--~l~~--~~l~~l~~L  350 (532)
                      +...+..+++|+.|+++-.....  ...+...   ...+         ++|++|++++|. +.  .++.  ..+..+++|
T Consensus       114 l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~---l~~l~~~~~~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L  189 (386)
T 2ca6_A          114 LIDFLSKHTPLEHLYLHNNGLGPQAGAKIARA---LQELAVNKKAKNAPPLRSIICGRNR-LENGSMKEWAKTFQSHRLL  189 (386)
T ss_dssp             HHHHHHHCTTCCEEECCSSCCHHHHHHHHHHH---HHHHHHHHHHHTCCCCCEEECCSSC-CTGGGHHHHHHHHHHCTTC
T ss_pred             HHHHHHhCCCCCEEECcCCCCCHHHHHHHHHH---HHHHhhhhhcccCCCCcEEECCCCC-CCcHHHHHHHHHHHhCCCc
Confidence            34456778888888854332211  1112111   1112         569999999875 54  3332  135677899


Q ss_pred             cceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccc-----cCCc-hhcCCCcceeeecccccccccccc
Q 009534          351 EALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLR-----HVTW-LILAPNLKLIQMYDCRCLEEIISL  424 (532)
Q Consensus       351 ~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~-----~l~~-l~~l~~L~~L~l~~c~~l~~i~~~  424 (532)
                      +.|++++|. +........     .+.....+++|++|+|++|.+.     .+|. +..+++|+.|++++|. +......
T Consensus       190 ~~L~L~~n~-l~~~g~~~l-----~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~  262 (386)
T 2ca6_A          190 HTVKMVQNG-IRPEGIEHL-----LLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCL-LSARGAA  262 (386)
T ss_dssp             CEEECCSSC-CCHHHHHHH-----HHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCC-CCHHHHH
T ss_pred             CEEECcCCC-CCHhHHHHH-----HHHHhhcCCCccEEECcCCCCCcHHHHHHHHHHccCCCcCEEECCCCC-CchhhHH
Confidence            999999873 331100000     0001236889999999999773     3443 6788999999998876 3332110


Q ss_pred             ccccCcCcccCccc--ccccccceeeccccccccc-----cCCCC-cCCCCccEEeecCCCC
Q 009534          425 EKLGEVPSEEMQNL--IPFARLERLSLGGLENLRS-----IYPRA-LPFPHLKELHVTLCPK  478 (532)
Q Consensus       425 ~~~~~~~~~~~~~~--~~~~~L~~L~l~~~~~L~~-----i~~~~-~~~p~L~~L~i~~C~~  478 (532)
                      .-        +..+  ..+++|++|++++|. +..     ++... ..+|+|+.|++++|+-
T Consensus       263 ~l--------~~~l~~~~~~~L~~L~L~~n~-i~~~g~~~l~~~l~~~l~~L~~L~l~~N~l  315 (386)
T 2ca6_A          263 AV--------VDAFSKLENIGLQTLRLQYNE-IELDAVRTLKTVIDEKMPDLLFLELNGNRF  315 (386)
T ss_dssp             HH--------HHHHHTCSSCCCCEEECCSSC-CBHHHHHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             HH--------HHHHhhccCCCeEEEECcCCc-CCHHHHHHHHHHHHhcCCCceEEEccCCcC
Confidence            00        0133  337999999999874 444     66545 4589999999999853

>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=98.14  E-value=7.4e-06  Score=82.73  Aligned_cols=105  Identities=15%  Similarity=0.002  Sum_probs=76.5

Q ss_pred             CcccccHHHHHHHHHHhcc----CCceEEEEecCCCCcHHHHHHHHHHhccCCC----CC--CCeEEEEEeCCCC-CHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTE----EPVGIVGLYGMGGVGKTTLLTQINNSFLHTP----NN--FDFVIWEVVSRDL-QLGK  215 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~~--F~~~~wv~v~~~~-~~~~  215 (532)
                      +.++||+++++.+.+++..    +..+.+.|+|++|+||||+|+.+++... ..    ..  ....+|+...... +...
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~-~~~~~~~~~~~~~~~~i~~~~~~~~~~~   98 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIE-EVKKEDEEYKDVKQAYVNCREVGGTPQA   98 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHH-HHHHHSSSSTTCEEEEEEHHHHCSCHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHH-HHhhhhcCCCCceEEEEECccCCCCHHH
Confidence            5789999999999887753    3567899999999999999999998751 11    11  2356777776666 8888


Q ss_pred             HHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhcCCcE
Q 009534          216 IQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKF  252 (532)
Q Consensus       216 l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~  252 (532)
                      +...++..+..........+.......+.+.+..++.
T Consensus        99 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~  135 (384)
T 2qby_B           99 VLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRA  135 (384)
T ss_dssp             HHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCE
T ss_pred             HHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCC
Confidence            8899888884322111334456667788888887774

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.14  E-value=4.9e-06  Score=74.20  Aligned_cols=74  Identities=14%  Similarity=0.156  Sum_probs=35.5

Q ss_pred             CeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hhc
Q 009534          326 PSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LIL  403 (532)
Q Consensus       326 ~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~  403 (532)
                      +.+++++. .++.+|.. ++  ++|+.|++++. .+..++.....          .+++|++|+|++|+++.+|.  +..
T Consensus        15 ~~l~~~~n-~l~~iP~~-~~--~~L~~L~Ls~N-~l~~~~~~~~~----------~l~~L~~L~Ls~N~l~~i~~~~~~~   79 (174)
T 2r9u_A           15 TLVNCQNI-RLASVPAG-IP--TDKQRLWLNNN-QITKLEPGVFD----------HLVNLQQLYFNSNKLTAIPTGVFDK   79 (174)
T ss_dssp             SEEECCSS-CCSSCCSC-CC--TTCSEEECCSS-CCCCCCTTTTT----------TCTTCCEEECCSSCCCCCCTTTTTT
T ss_pred             cEEEeCCC-CCCccCCC-cC--CCCcEEEeCCC-CccccCHHHhc----------CCcCCCEEECCCCCCCccChhHhCC
Confidence            34454442 34555543 22  45555555553 34434332222          45555555555555555543  344


Q ss_pred             CCCcceeeecc
Q 009534          404 APNLKLIQMYD  414 (532)
Q Consensus       404 l~~L~~L~l~~  414 (532)
                      +++|+.|++++
T Consensus        80 l~~L~~L~L~~   90 (174)
T 2r9u_A           80 LTQLTQLDLND   90 (174)
T ss_dssp             CTTCCEEECCS
T ss_pred             cchhhEEECCC
Confidence            55555555544

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.13  E-value=8.7e-06  Score=80.50  Aligned_cols=61  Identities=13%  Similarity=0.167  Sum_probs=40.2

Q ss_pred             ccCCCeEEEecCCCCC--------------------ccccccccc--------cccccceeeccccCcceeeecccCCcc
Q 009534          322 VSNTPSLSLTNCRSLS--------------------SLSVLTLAS--------LRHLEALDMRYCKDLEEMEIDYAGGEV  373 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~--------------------~l~~~~l~~--------l~~L~~L~i~~c~~L~~l~~~~~~~~~  373 (532)
                      +++|+.|+|+++. +.                    .+|...|..        +++|+.|.+.+  .++.++.....   
T Consensus        48 l~~L~~LdLs~n~-i~~~~~~~~~~~~~~~~~~~~~~I~~~aF~~~~~~~~~g~~~L~~l~L~~--~i~~I~~~aF~---  121 (329)
T 3sb4_A           48 FPSLKVLDISNAE-IKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNGVTKGKQTLEKVILSE--KIKNIEDAAFK---  121 (329)
T ss_dssp             CTTCCEEEEEEEE-ECCEEESSSSSGGGCCEEECTTEECTTTTEEEETTEEEECTTCCC-CBCT--TCCEECTTTTT---
T ss_pred             hccCeEEecCcce-eEEecCccccccccccccccccccCHHHhcccccccccccCCCcEEECCc--cccchhHHHhh---
Confidence            3457777777643 33                    455556677        88999998876  66766665544   


Q ss_pred             ccccccCCCCCccEEEEeCCcc
Q 009534          374 KRIRETHGFFSLHKVSIWGSKL  395 (532)
Q Consensus       374 ~~~~~~~~l~~L~~L~l~~c~L  395 (532)
                             .+++|+.|++.++.+
T Consensus       122 -------~~~~L~~l~l~~n~i  136 (329)
T 3sb4_A          122 -------GCDNLKICQIRKKTA  136 (329)
T ss_dssp             -------TCTTCCEEEBCCSSC
T ss_pred             -------cCcccceEEcCCCCc
Confidence                   577888888776643

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.10  E-value=6.5e-06  Score=73.05  Aligned_cols=82  Identities=13%  Similarity=0.154  Sum_probs=38.5

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hh
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LI  402 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~  402 (532)
                      .+.+++++ ..++.+|.. +.  ++|+.|++++. .++.++.....          .+++|++|++++|+++.++.  +.
T Consensus        11 ~~~l~~s~-n~l~~ip~~-~~--~~l~~L~L~~N-~i~~~~~~~~~----------~l~~L~~L~Ls~N~l~~l~~~~f~   75 (170)
T 3g39_A           11 GTTVDCSG-KSLASVPTG-IP--TTTQVLYLYDN-QITKLEPGVFD----------RLTQLTRLDLDNNQLTVLPAGVFD   75 (170)
T ss_dssp             TTEEECTT-SCCSSCCSC-CC--TTCSEEECCSS-CCCCCCTTTTT----------TCTTCSEEECCSSCCCCCCTTTTT
T ss_pred             CCEEEeCC-CCcCccCcc-CC--CCCcEEEcCCC-cCCccChhhhc----------CcccCCEEECCCCCcCccChhhcc
Confidence            34455554 235555533 22  45555555553 34434332222          35555555555555555443  34


Q ss_pred             cCCCcceeeecccccccccc
Q 009534          403 LAPNLKLIQMYDCRCLEEII  422 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~  422 (532)
                      .+++|++|+++++ .+..++
T Consensus        76 ~l~~L~~L~L~~N-~l~~~~   94 (170)
T 3g39_A           76 KLTQLTQLSLNDN-QLKSIP   94 (170)
T ss_dssp             TCTTCCEEECCSS-CCCCCC
T ss_pred             CCCCCCEEECCCC-ccCEeC
Confidence            5555555555443 244443

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.09  E-value=1.6e-05  Score=80.13  Aligned_cols=100  Identities=18%  Similarity=0.194  Sum_probs=74.8

Q ss_pred             CcccccHHHHHHHHHHhcc----CCceEEEEecCCCCcHHHHHHHHHHhccCCC----CCCCeEEEEEeCCCCCHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTE----EPVGIVGLYGMGGVGKTTLLTQINNSFLHTP----NNFDFVIWEVVSRDLQLGKIQE  218 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~~F~~~~wv~v~~~~~~~~l~~  218 (532)
                      +.++||+++++.+.+++..    +..+.+.|+|++|+||||+|+.+++... ..    +.--..+|+......+...+..
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~-~~~~~~~~~~~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLE-ARASSLGVLVKPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHH-HHHHHHTCCEEEEEEETTTSCSHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHH-HHHhccCCCeEEEEEECCcCCCHHHHHH
Confidence            5789999999999998843    4567899999999999999999998762 11    0012456777777788899999


Q ss_pred             HHHHHhcCCCCCCCCCCHHHHHHHHHHHhc
Q 009534          219 SIAKKIGLCNESWDSKSFDEKAQEIFKTMR  248 (532)
Q Consensus       219 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~  248 (532)
                      .++..++..... ...+..+....+.+.+.
T Consensus        98 ~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~  126 (387)
T 2v1u_A           98 AIAEAVGVRVPF-TGLSVGEVYERLVKRLS  126 (387)
T ss_dssp             HHHHHHSCCCCS-SCCCHHHHHHHHHHHHT
T ss_pred             HHHHHhCCCCCC-CCCCHHHHHHHHHHHHh
Confidence            999999764321 33446666677777774

>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=98.09  E-value=5.7e-06  Score=83.41  Aligned_cols=105  Identities=12%  Similarity=0.161  Sum_probs=75.0

Q ss_pred             CcccccHHHHHHHHHHhcc----CCceEEEEecCCCCcHHHHHHHHHHhccCCCCC---CCeEEEEEeCCCCCHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTE----EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNN---FDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~---F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      +.++||+++++.+.+++..    +....+.|+|+.|+||||||+.+++...   ..   -...+|+......+...+...
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~---~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLH---KKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHH---HHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HHhcCCceEEEEECCCCCCHHHHHHH
Confidence            5789999999999999873    4577899999999999999999998762   22   235677776666677788888


Q ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHhcC--CcEEEe
Q 009534          220 IAKKIGLCNESWDSKSFDEKAQEIFKTMRN--TKFLIS  255 (532)
Q Consensus       220 i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~--kr~LlV  255 (532)
                      ++..++..... ...+..+....+.+.+..  ++.+||
T Consensus        97 i~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vli  133 (386)
T 2qby_A           97 LLESLDVKVPF-TGLSIAELYRRLVKAVRDYGSQVVIV  133 (386)
T ss_dssp             HTTTTSCCCCS-SSCCHHHHHHHHHHHHHTCCSCEEEE
T ss_pred             HHHHhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEE
Confidence            88777653221 233455656666666643  344444

>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=98.05  E-value=4.1e-05  Score=77.27  Aligned_cols=99  Identities=16%  Similarity=0.108  Sum_probs=72.4

Q ss_pred             CcccccHHHHHHHHHHhcc----CCce--EEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTE----EPVG--IVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESI  220 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~----~~~~--vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i  220 (532)
                      +.++||+++++.+.+++..    +...  .+.|+|+.|+||||+++.+.+.. ..... ...+|+..+...+...+...+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~-~~~~~-~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KDKTT-ARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH-TTSCC-CEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH-hhhcC-eeEEEEeCccCCCHHHHHHHH
Confidence            5789999999999998865    2334  89999999999999999999987 22111 346677777777888999999


Q ss_pred             HHHhcCCCCCCCCCCHHHHHHHHHHHhc
Q 009534          221 AKKIGLCNESWDSKSFDEKAQEIFKTMR  248 (532)
Q Consensus       221 ~~~l~~~~~~~~~~~~~~~~~~l~~~L~  248 (532)
                      +..++..... ...+.......+.+.+.
T Consensus        95 ~~~l~~~~~~-~~~~~~~~~~~l~~~l~  121 (389)
T 1fnn_A           95 ARSLNIPFPR-RGLSRDEFLALLVEHLR  121 (389)
T ss_dssp             HHHTTCCCCS-SCCCHHHHHHHHHHHHH
T ss_pred             HHHhCccCCC-CCCCHHHHHHHHHHHHh
Confidence            9988654321 23345566666666553

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.05  E-value=9.5e-06  Score=80.60  Aligned_cols=69  Identities=16%  Similarity=0.150  Sum_probs=54.5

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC------CHHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL------QLGKIQESI  220 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~------~~~~l~~~i  220 (532)
                      +.++||+++++.+.+++..+  +++.|+|+.|+|||||++.+.++.    +    .+|+.+....      +...+.+.+
T Consensus        12 ~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~----~----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (350)
T 2qen_A           12 EDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER----P----GILIDCRELYAERGHITREELIKEL   81 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS----S----EEEEEHHHHHHTTTCBCHHHHHHHH
T ss_pred             HhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc----C----cEEEEeecccccccCCCHHHHHHHH
Confidence            57899999999999998764  799999999999999999998875    1    6777764432      566666666


Q ss_pred             HHHhc
Q 009534          221 AKKIG  225 (532)
Q Consensus       221 ~~~l~  225 (532)
                      ...+.
T Consensus        82 ~~~l~   86 (350)
T 2qen_A           82 QSTIS   86 (350)
T ss_dssp             HHHSC
T ss_pred             HHHHH
Confidence            66553

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=98.04  E-value=6.6e-07  Score=92.80  Aligned_cols=171  Identities=18%  Similarity=0.124  Sum_probs=102.1

Q ss_pred             hhhhcCCccCceeeEEeccchh--HHHhhcCCcccccccCCCeEEEecCCCCCc-----cccccccccccccceeecccc
Q 009534          287 VEELLGLKHLNVLTITLHSFAA--LQRLLTYPSLQSIVSNTPSLSLTNCRSLSS-----LSVLTLASLRHLEALDMRYCK  359 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~--l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~-----l~~~~l~~l~~L~~L~i~~c~  359 (532)
                      ...+..+++|+.|+++-.....  +..+...  ....+++|++|++++| .++.     ++.. +..+++|+.|+++++.
T Consensus       220 ~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~--~~~~~~~L~~L~L~~n-~l~~~~~~~l~~~-l~~~~~L~~L~Ls~n~  295 (461)
T 1z7x_W          220 CGIVASKASLRELALGSNKLGDVGMAELCPG--LLHPSSRLRTLWIWEC-GITAKGCGDLCRV-LRAKESLKELSLAGNE  295 (461)
T ss_dssp             HHHHHHCTTCCEEECCSSBCHHHHHHHHHHH--HTSTTCCCCEEECTTS-CCCHHHHHHHHHH-HHHCTTCCEEECTTCC
T ss_pred             HHHHHhCCCccEEeccCCcCChHHHHHHHHH--HhcCCCCceEEECcCC-CCCHHHHHHHHHH-HhhCCCcceEECCCCC
Confidence            4445667888888854322221  1112111  1112466999999987 4666     3332 5667889999998873


Q ss_pred             CcceeeecccCCccccccccCCCCCccEEEEeCCccccC-----C-chhcCCCcceeeeccccccccccccccccCcCcc
Q 009534          360 DLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHV-----T-WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSE  433 (532)
Q Consensus       360 ~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l-----~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~  433 (532)
                       +.........     ..-....++|++|++++|.++..     + ++..+++|++|++++|. +.......-       
T Consensus       296 -i~~~~~~~l~-----~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~-i~~~~~~~l-------  361 (461)
T 1z7x_W          296 -LGDEGARLLC-----ETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNR-LEDAGVREL-------  361 (461)
T ss_dssp             -CHHHHHHHHH-----HHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCSSCCEEECCSSB-CHHHHHHHH-------
T ss_pred             -CchHHHHHHH-----HHhccCCccceeeEcCCCCCchHHHHHHHHHHhhCCCccEEEccCCc-cccccHHHH-------
Confidence             3321111000     00001246999999999977653     2 25678999999998874 443321000       


Q ss_pred             cCcccc-cccccceeecccccccc-----ccCCCCcCCCCccEEeecCCC
Q 009534          434 EMQNLI-PFARLERLSLGGLENLR-----SIYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       434 ~~~~~~-~~~~L~~L~l~~~~~L~-----~i~~~~~~~p~L~~L~i~~C~  477 (532)
                       ...+. ..++|++|++++| .++     .++.....+++|+.|++++|+
T Consensus       362 -~~~l~~~~~~L~~L~L~~n-~i~~~~~~~l~~~l~~~~~L~~L~l~~N~  409 (461)
T 1z7x_W          362 -CQGLGQPGSVLRVLWLADC-DVSDSSCSSLAATLLANHSLRELDLSNNC  409 (461)
T ss_dssp             -HHHHTSTTCCCCEEECTTS-CCCHHHHHHHHHHHHHCCCCCEEECCSSS
T ss_pred             -HHHHcCCCCceEEEECCCC-CCChhhHHHHHHHHHhCCCccEEECCCCC
Confidence             00111 2679999999998 455     455555668999999999985

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=98.04  E-value=6.6e-07  Score=92.81  Aligned_cols=71  Identities=24%  Similarity=0.224  Sum_probs=37.9

Q ss_pred             chhhhcCCccCceeeEEeccchh--HHHhhcCCcccccccCCCeEEEecCCCCCcccc----ccccccccccceeecccc
Q 009534          286 LVEELLGLKHLNVLTITLHSFAA--LQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSV----LTLASLRHLEALDMRYCK  359 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~--l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~----~~l~~l~~L~~L~i~~c~  359 (532)
                      ....+..+++|+.|+++-.....  ...+...  +....++|++|++++|. +.....    ..+..+++|+.|+++++.
T Consensus       105 l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~--l~~~~~~L~~L~L~~n~-l~~~~~~~l~~~l~~~~~L~~L~L~~n~  181 (461)
T 1z7x_W          105 LSSTLRTLPTLQELHLSDNLLGDAGLQLLCEG--LLDPQCRLEKLQLEYCS-LSAASCEPLASVLRAKPDFKELTVSNND  181 (461)
T ss_dssp             HHHHTTSCTTCCEEECCSSBCHHHHHHHHHHH--HTSTTCCCCEEECTTSC-CBGGGHHHHHHHHHHCTTCCEEECCSSB
T ss_pred             HHHHHccCCceeEEECCCCcCchHHHHHHHHH--HhcCCCcceEEECCCCC-CCHHHHHHHHHHHhhCCCCCEEECcCCC
Confidence            35556778888888854222211  1122111  11113458888888874 444321    124456788888887764

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.02  E-value=9.7e-07  Score=88.67  Aligned_cols=35  Identities=14%  Similarity=-0.016  Sum_probs=18.4

Q ss_pred             cccceeeccccccccccCC-----CCcCCCCccEEeecCCC
Q 009534          442 ARLERLSLGGLENLRSIYP-----RALPFPHLKELHVTLCP  477 (532)
Q Consensus       442 ~~L~~L~l~~~~~L~~i~~-----~~~~~p~L~~L~i~~C~  477 (532)
                      ++|++|+++++ .+...+.     ....+++|+.|++++|.
T Consensus       225 ~~L~~L~Ls~N-~l~~~~~~~l~~~~~~l~~L~~L~L~~n~  264 (362)
T 3goz_A          225 NHVVSLNLCLN-CLHGPSLENLKLLKDSLKHLQTVYLDYDI  264 (362)
T ss_dssp             TTCCEEECCSS-CCCCCCHHHHHHTTTTTTTCSEEEEEHHH
T ss_pred             CCceEEECcCC-CCCcHHHHHHHHHHhcCCCccEEEeccCC
Confidence            36666666654 2333221     22345666666666664

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=98.01  E-value=2e-06  Score=92.12  Aligned_cols=83  Identities=16%  Similarity=0.196  Sum_probs=45.7

Q ss_pred             CCCccEEEEeCC-c-ccc--CCch-hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccc
Q 009534          382 FFSLHKVSIWGS-K-LRH--VTWL-ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLR  456 (532)
Q Consensus       382 l~~L~~L~l~~c-~-L~~--l~~l-~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~  456 (532)
                      +++|++|+++.| + +..  +..+ ..+++|+.|++++|. +.....           +..+..+++|++|++++|+ +.
T Consensus       435 ~~~L~~L~L~~~~~~l~~~~~~~~~~~~~~L~~L~L~~n~-l~~~~~-----------~~~~~~~~~L~~L~l~~n~-l~  501 (592)
T 3ogk_B          435 CKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWMLLGYVG-ESDEGL-----------MEFSRGCPNLQKLEMRGCC-FS  501 (592)
T ss_dssp             CTTCCEEEEECCGGGCCHHHHHHHHHSCTTCCEEEECSCC-SSHHHH-----------HHHHTCCTTCCEEEEESCC-CB
T ss_pred             CCCCCEEEEecCCCCccHHHHHHHHHhCccceEeeccCCC-CCHHHH-----------HHHHhcCcccCeeeccCCC-Cc
Confidence            555666666555 2 222  1112 235666666665543 221100           0133557888888888887 43


Q ss_pred             c--cCCCCcCCCCccEEeecCCC
Q 009534          457 S--IYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       457 ~--i~~~~~~~p~L~~L~i~~C~  477 (532)
                      .  ++.....+|+|+.|++++|+
T Consensus       502 ~~~~~~~~~~l~~L~~L~ls~n~  524 (592)
T 3ogk_B          502 ERAIAAAVTKLPSLRYLWVQGYR  524 (592)
T ss_dssp             HHHHHHHHHHCSSCCEEEEESCB
T ss_pred             HHHHHHHHHhcCccCeeECcCCc
Confidence            2  22223457888888888887

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.01  E-value=1.6e-05  Score=70.47  Aligned_cols=101  Identities=13%  Similarity=0.096  Sum_probs=77.5

Q ss_pred             cccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeecccccccccccccc
Q 009534          349 HLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEK  426 (532)
Q Consensus       349 ~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~  426 (532)
                      ..+.+++++. .++.+|...             +++|++|++++|+++.++.  +..+++|+.|+++++ .+..++.   
T Consensus        10 ~~~~l~~s~n-~l~~ip~~~-------------~~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N-~l~~l~~---   71 (170)
T 3g39_A           10 SGTTVDCSGK-SLASVPTGI-------------PTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNN-QLTVLPA---   71 (170)
T ss_dssp             ETTEEECTTS-CCSSCCSCC-------------CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSS-CCCCCCT---
T ss_pred             CCCEEEeCCC-CcCccCccC-------------CCCCcEEEcCCCcCCccChhhhcCcccCCEEECCCC-CcCccCh---
Confidence            3456666663 566666432             4789999999998888754  788999999999876 4777765   


Q ss_pred             ccCcCcccCcccccccccceeeccccccccccCCC-CcCCCCccEEeecCCC
Q 009534          427 LGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR-ALPFPHLKELHVTLCP  477 (532)
Q Consensus       427 ~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~-~~~~p~L~~L~i~~C~  477 (532)
                               ..+..+++|++|++++. +++.++.. ...+++|+.|++++.+
T Consensus        72 ---------~~f~~l~~L~~L~L~~N-~l~~~~~~~~~~l~~L~~L~L~~N~  113 (170)
T 3g39_A           72 ---------GVFDKLTQLTQLSLNDN-QLKSIPRGAFDNLKSLTHIWLLNNP  113 (170)
T ss_dssp             ---------TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             ---------hhccCCCCCCEEECCCC-ccCEeCHHHhcCCCCCCEEEeCCCC
Confidence                     24678999999999985 68888774 5678999999998853

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.97  E-value=1.3e-05  Score=79.74  Aligned_cols=82  Identities=18%  Similarity=0.176  Sum_probs=52.0

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      +++|+.|+|++.+.+..++...|..+++|+.|++++. .+..++.....          .+++|++|+|++|+|..+|. 
T Consensus        30 ~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N-~l~~~~~~~~~----------~l~~L~~L~l~~N~l~~~~~~   98 (347)
T 2ifg_A           30 AENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFH----------FTPRLSRLNLSFNALESLSWK   98 (347)
T ss_dssp             CSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGG----------SCSCCCEEECCSSCCSCCCST
T ss_pred             CCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCC-ccceeCHHHhc----------CCcCCCEEeCCCCccceeCHH
Confidence            4557777777655677776655677777777777765 56666554433          57777777777777766653 


Q ss_pred             -hhcCCCcceeeeccc
Q 009534          401 -LILAPNLKLIQMYDC  415 (532)
Q Consensus       401 -l~~l~~L~~L~l~~c  415 (532)
                       +..++ |+.|++.+.
T Consensus        99 ~~~~~~-L~~l~l~~N  113 (347)
T 2ifg_A           99 TVQGLS-LQELVLSGN  113 (347)
T ss_dssp             TTCSCC-CCEEECCSS
T ss_pred             HcccCC-ceEEEeeCC
Confidence             22333 777777543

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=97.93  E-value=1.3e-05  Score=71.46  Aligned_cols=82  Identities=16%  Similarity=0.209  Sum_probs=68.9

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|+.|+++++. +..++...+..+++|+.|++++. .+..++.....          .+++|++|++++|.++.+|.  
T Consensus        33 ~~L~~L~Ls~N~-l~~~~~~~~~~l~~L~~L~Ls~N-~l~~i~~~~~~----------~l~~L~~L~L~~N~l~~l~~~~  100 (174)
T 2r9u_A           33 TDKQRLWLNNNQ-ITKLEPGVFDHLVNLQQLYFNSN-KLTAIPTGVFD----------KLTQLTQLDLNDNHLKSIPRGA  100 (174)
T ss_dssp             TTCSEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTT----------TCTTCCEEECCSSCCCCCCTTT
T ss_pred             CCCcEEEeCCCC-ccccCHHHhcCCcCCCEEECCCC-CCCccChhHhC----------CcchhhEEECCCCccceeCHHH
Confidence            459999999964 88887666889999999999986 67777765543          68999999999999999875  


Q ss_pred             hhcCCCcceeeecccc
Q 009534          401 LILAPNLKLIQMYDCR  416 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~  416 (532)
                      +..+++|+.|++++.+
T Consensus       101 ~~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A          101 FDNLKSLTHIYLYNNP  116 (174)
T ss_dssp             TTTCTTCSEEECCSSC
T ss_pred             hccccCCCEEEeCCCC
Confidence            7889999999998754

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=97.90  E-value=2.1e-06  Score=92.06  Aligned_cols=85  Identities=13%  Similarity=0.051  Sum_probs=45.3

Q ss_pred             CCCCccEEEEeCCcccc--CC-chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccc------
Q 009534          381 GFFSLHKVSIWGSKLRH--VT-WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGG------  451 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~--l~-~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~------  451 (532)
                      .+++|++|++++|.+..  ++ .+..+++|+.|++.++..-..+..             ....+++|++|++.+      
T Consensus       291 ~~~~L~~L~Ls~~~l~~~~~~~~~~~~~~L~~L~L~~~~~~~~l~~-------------~~~~~~~L~~L~L~~g~~~~~  357 (592)
T 3ogk_B          291 FAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEV-------------LAQYCKQLKRLRIERGADEQG  357 (592)
T ss_dssp             GGGGCCEEEETTCCCCHHHHHHHHTTCTTCCEEEEEGGGHHHHHHH-------------HHHHCTTCCEEEEECCCCSST
T ss_pred             hcCCCcEEecCCCcCCHHHHHHHHHhCcCCCEEeccCccCHHHHHH-------------HHHhCCCCCEEEeecCccccc
Confidence            45566666666665332  11 135566666666653322111211             234467788888875      


Q ss_pred             ----cccccccC--CCCcCCCCccEEeecCCCCC
Q 009534          452 ----LENLRSIY--PRALPFPHLKELHVTLCPKL  479 (532)
Q Consensus       452 ----~~~L~~i~--~~~~~~p~L~~L~i~~C~~L  479 (532)
                          |..+....  .....+|+|++|++ .|.++
T Consensus       358 ~~~~~~~~~~~~~~~l~~~~~~L~~L~l-~~~~l  390 (592)
T 3ogk_B          358 MEDEEGLVSQRGLIALAQGCQELEYMAV-YVSDI  390 (592)
T ss_dssp             TSSTTCCCCHHHHHHHHHHCTTCSEEEE-EESCC
T ss_pred             cccccCccCHHHHHHHHhhCccCeEEEe-ecCCc
Confidence                65554321  11234788888888 44444

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=97.87  E-value=2.6e-06  Score=91.24  Aligned_cols=39  Identities=13%  Similarity=0.175  Sum_probs=23.8

Q ss_pred             ccccccceeeccccccccccC--CCCcCCCCccEEeecCCCC
Q 009534          439 IPFARLERLSLGGLENLRSIY--PRALPFPHLKELHVTLCPK  478 (532)
Q Consensus       439 ~~~~~L~~L~l~~~~~L~~i~--~~~~~~p~L~~L~i~~C~~  478 (532)
                      ..+++|+.|++++|+. ....  .....+++|+.|++++|+.
T Consensus       478 ~~~~~L~~L~L~~n~~-~~~~~~~~~~~l~~L~~L~l~~~~~  518 (594)
T 2p1m_B          478 SGCDSLRKLEIRDCPF-GDKALLANASKLETMRSLWMSSCSV  518 (594)
T ss_dssp             HHCTTCCEEEEESCSC-CHHHHHHTGGGGGGSSEEEEESSCC
T ss_pred             hcCCCcCEEECcCCCC-cHHHHHHHHHhCCCCCEEeeeCCCC
Confidence            3467777777777764 2211  1233467777777777765

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.87  E-value=4.1e-06  Score=83.90  Aligned_cols=133  Identities=14%  Similarity=0.142  Sum_probs=78.6

Q ss_pred             cccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCC-------
Q 009534          321 IVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-------  393 (532)
Q Consensus       321 ~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-------  393 (532)
                      .+++|+.|.|+++..+. ++.  +. +++|+.|.+..|. +..-......        ...+|+|++|+|+.+       
T Consensus       170 ~~P~L~~L~L~g~~~l~-l~~--~~-~~~L~~L~L~~~~-l~~~~l~~l~--------~~~lp~L~~L~L~~~~~~~~~~  236 (362)
T 2ra8_A          170 AMPLLNNLKIKGTNNLS-IGK--KP-RPNLKSLEIISGG-LPDSVVEDIL--------GSDLPNLEKLVLYVGVEDYGFD  236 (362)
T ss_dssp             TCTTCCEEEEECCBTCB-CCS--CB-CTTCSEEEEECSB-CCHHHHHHHH--------HSBCTTCCEEEEECBCGGGTCC
T ss_pred             cCCCCcEEEEeCCCCce-ecc--cc-CCCCcEEEEecCC-CChHHHHHHH--------HccCCCCcEEEEeccccccccc
Confidence            35779999998874332 222  32 6789999988764 3211110000        125889999998642       


Q ss_pred             -ccccCCc---hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccc-----cCCCCcC
Q 009534          394 -KLRHVTW---LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRS-----IYPRALP  464 (532)
Q Consensus       394 -~L~~l~~---l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~-----i~~~~~~  464 (532)
                       .+..+..   ...+|+|+.|.+.+|.-.......-          .....+|+|++|+|+.+ .+..     ++..+..
T Consensus       237 ~~~~~l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~l----------a~a~~~~~L~~LdLs~n-~L~d~G~~~L~~~L~~  305 (362)
T 2ra8_A          237 GDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMF----------LESDILPQLETMDISAG-VLTDEGARLLLDHVDK  305 (362)
T ss_dssp             SCGGGTGGGSCTTTCTTCCEEEEESCTTHHHHHHHH----------HHCSSGGGCSEEECCSS-CCBHHHHHHHHTTHHH
T ss_pred             hhHHHHHHHHhcCCCCCcCEEeCCCCCCchHHHHHH----------HhCccCCCCCEEECCCC-CCChHHHHHHHhhccc
Confidence             1222221   2357899999998776432221100          01234789999999764 4554     3333346


Q ss_pred             CCCccEEeecCCC
Q 009534          465 FPHLKELHVTLCP  477 (532)
Q Consensus       465 ~p~L~~L~i~~C~  477 (532)
                      +++|+.|++++|.
T Consensus       306 l~~L~~L~L~~n~  318 (362)
T 2ra8_A          306 IKHLKFINMKYNY  318 (362)
T ss_dssp             HTTCSEEECCSBB
T ss_pred             CCcceEEECCCCc
Confidence            7899999998874

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=97.71  E-value=7.9e-05  Score=74.01  Aligned_cols=68  Identities=13%  Similarity=0.182  Sum_probs=52.0

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCC-----CCHHHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRD-----LQLGKIQESIA  221 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~-----~~~~~l~~~i~  221 (532)
                      ..++||+++++.+.+ +..   +++.|+|++|+|||||++.+.+.. .  .   ..+|+.+...     .+...+...+.
T Consensus        13 ~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~-~--~---~~~~~~~~~~~~~~~~~~~~~~~~l~   82 (357)
T 2fna_A           13 KDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINEL-N--L---PYIYLDLRKFEERNYISYKDFLLELQ   82 (357)
T ss_dssp             GGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHH-T--C---CEEEEEGGGGTTCSCCCHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhc-C--C---CEEEEEchhhccccCCCHHHHHHHHH
Confidence            578999999999999 765   699999999999999999999887 2  2   2578886642     34455555554


Q ss_pred             HHh
Q 009534          222 KKI  224 (532)
Q Consensus       222 ~~l  224 (532)
                      ..+
T Consensus        83 ~~l   85 (357)
T 2fna_A           83 KEI   85 (357)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=97.69  E-value=8.8e-06  Score=81.62  Aligned_cols=141  Identities=16%  Similarity=0.108  Sum_probs=89.1

Q ss_pred             cc-CCCeEEEecCCCCCcccccccccc-----ccccceeeccccCcceeeecccCCccccccccCCC-CCccEEEEeCCc
Q 009534          322 VS-NTPSLSLTNCRSLSSLSVLTLASL-----RHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGF-FSLHKVSIWGSK  394 (532)
Q Consensus       322 l~-~L~~L~l~~c~~l~~l~~~~l~~l-----~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l-~~L~~L~l~~c~  394 (532)
                      ++ +|++|++++|. +.......+..+     ++|++|++++|. +...+.....      .....+ ++|++|++++|.
T Consensus        49 ~~~~L~~L~Ls~N~-l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~~~~~~l~------~~l~~~~~~L~~L~Ls~N~  120 (362)
T 3goz_A           49 TPASVTSLNLSGNS-LGFKNSDELVQILAAIPANVTSLNLSGNF-LSYKSSDELV------KTLAAIPFTITVLDLGWND  120 (362)
T ss_dssp             CCTTCCEEECCSSC-GGGSCHHHHHHHHHTSCTTCCEEECCSSC-GGGSCHHHHH------HHHHTSCTTCCEEECCSSC
T ss_pred             CCCceeEEECcCCC-CCHHHHHHHHHHHhccCCCccEEECcCCc-CChHHHHHHH------HHHHhCCCCccEEECcCCc
Confidence            34 69999999974 666544445554     899999999984 4433322110      001134 799999999998


Q ss_pred             cccCCc------hhc-CCCcceeeeccccccccccccccccCcCcccCccccccc-ccceeeccccccccccCC-----C
Q 009534          395 LRHVTW------LIL-APNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFA-RLERLSLGGLENLRSIYP-----R  461 (532)
Q Consensus       395 L~~l~~------l~~-l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~-~L~~L~l~~~~~L~~i~~-----~  461 (532)
                      +...+.      +.. .++|++|++++|. +.......        -+..+..++ +|++|++++| .++....     .
T Consensus       121 l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-l~~~~~~~--------l~~~l~~~~~~L~~L~Ls~n-~l~~~~~~~l~~~  190 (362)
T 3goz_A          121 FSSKSSSEFKQAFSNLPASITSLNLRGND-LGIKSSDE--------LIQILAAIPANVNSLNLRGN-NLASKNCAELAKF  190 (362)
T ss_dssp             GGGSCHHHHHHHHTTSCTTCCEEECTTSC-GGGSCHHH--------HHHHHHTSCTTCCEEECTTS-CGGGSCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHhCCCceeEEEccCCc-CCHHHHHH--------HHHHHhcCCccccEeeecCC-CCchhhHHHHHHH
Confidence            887654      233 3699999999875 33211100        001334455 9999999997 4554432     2


Q ss_pred             CcCC-CCccEEeecCCCCCCC
Q 009534          462 ALPF-PHLKELHVTLCPKLKK  481 (532)
Q Consensus       462 ~~~~-p~L~~L~i~~C~~L~~  481 (532)
                      ...+ ++|+.|++++|. +..
T Consensus       191 l~~~~~~L~~L~Ls~N~-i~~  210 (362)
T 3goz_A          191 LASIPASVTSLDLSANL-LGL  210 (362)
T ss_dssp             HHTSCTTCCEEECTTSC-GGG
T ss_pred             HHhCCCCCCEEECCCCC-CCh
Confidence            2345 499999999986 443

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=97.66  E-value=6.3e-05  Score=74.74  Aligned_cols=100  Identities=25%  Similarity=0.298  Sum_probs=74.5

Q ss_pred             eEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hhcC
Q 009534          327 SLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILA  404 (532)
Q Consensus       327 ~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l  404 (532)
                      .++.++.+.++.+|.  ++.+++|+.|+++++..+..++.....          .+++|++|+|++|+|+.++.  +..+
T Consensus        12 ~v~~~~~n~l~~ip~--l~~~~~L~~L~l~~~n~l~~~~~~~~~----------~l~~L~~L~l~~N~l~~~~~~~~~~l   79 (347)
T 2ifg_A           12 GLRCTRDGALDSLHH--LPGAENLTELYIENQQHLQHLELRDLR----------GLGELRNLTIVKSGLRFVAPDAFHFT   79 (347)
T ss_dssp             CEECCSSCCCTTTTT--SCSCSCCSEEECCSCSSCCEECGGGSC----------SCCCCSEEECCSSCCCEECTTGGGSC
T ss_pred             EEEcCCCCCCCccCC--CCCCCCeeEEEccCCCCCCCcChhHhc----------cccCCCEEECCCCccceeCHHHhcCC
Confidence            455666446888886  888889999999876688888765544          68999999999998888654  6789


Q ss_pred             CCcceeeeccccccccccccccccCcCcccCcccccccccceeecccc
Q 009534          405 PNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGL  452 (532)
Q Consensus       405 ~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  452 (532)
                      ++|+.|+|++. .+..++.            ..+..+ +|+.|+|.+.
T Consensus        80 ~~L~~L~l~~N-~l~~~~~------------~~~~~~-~L~~l~l~~N  113 (347)
T 2ifg_A           80 PRLSRLNLSFN-ALESLSW------------KTVQGL-SLQELVLSGN  113 (347)
T ss_dssp             SCCCEEECCSS-CCSCCCS------------TTTCSC-CCCEEECCSS
T ss_pred             cCCCEEeCCCC-ccceeCH------------HHcccC-CceEEEeeCC
Confidence            99999999764 4777765            123333 3888888764

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.66  E-value=3.8e-05  Score=76.83  Aligned_cols=133  Identities=17%  Similarity=0.193  Sum_probs=80.6

Q ss_pred             ccCCCeEEEecCCC----C-----CccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeC
Q 009534          322 VSNTPSLSLTNCRS----L-----SSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWG  392 (532)
Q Consensus       322 l~~L~~L~l~~c~~----l-----~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~  392 (532)
                      |++|+.|.|.....    +     ..+. ..+..+|+|+.|.++++..+. ++.             ..+++|++|.|..
T Consensus       138 l~~L~~L~l~~~~~e~~~is~~~~~~L~-~ll~~~P~L~~L~L~g~~~l~-l~~-------------~~~~~L~~L~L~~  202 (362)
T 2ra8_A          138 FAHFEGLFWGDIDFEEQEISWIEQVDLS-PVLDAMPLLNNLKIKGTNNLS-IGK-------------KPRPNLKSLEIIS  202 (362)
T ss_dssp             HTTCSEEEECCCCTTTCCGGGCBCCBCH-HHHHTCTTCCEEEEECCBTCB-CCS-------------CBCTTCSEEEEEC
T ss_pred             cchhhheeecCcchhhcccccccccCHH-HHHhcCCCCcEEEEeCCCCce-ecc-------------ccCCCCcEEEEec
Confidence            56688888865321    0     1122 124667899999998874333 221             1378999999998


Q ss_pred             Ccccc--CCchh--cCCCcceeeeccccc-------cccccccccccCcCcccCcccccccccceeeccccccccccCC-
Q 009534          393 SKLRH--VTWLI--LAPNLKLIQMYDCRC-------LEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP-  460 (532)
Q Consensus       393 c~L~~--l~~l~--~l~~L~~L~l~~c~~-------l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-  460 (532)
                      |.+..  +..+.  .+|+|+.|+|+.+.+       ++.+..           .-....||+|+.|.+.+|.--...+. 
T Consensus       203 ~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~-----------~l~~~~~p~Lr~L~L~~~~i~~~~~~~  271 (362)
T 2ra8_A          203 GGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRP-----------LFSKDRFPNLKWLGIVDAEEQNVVVEM  271 (362)
T ss_dssp             SBCCHHHHHHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGG-----------GSCTTTCTTCCEEEEESCTTHHHHHHH
T ss_pred             CCCChHHHHHHHHccCCCCcEEEEeccccccccchhHHHHHH-----------HHhcCCCCCcCEEeCCCCCCchHHHHH
Confidence            86554  22233  689999999964321       111111           00123589999999988753221111 


Q ss_pred             --CCcCCCCccEEeecCCCCCCC
Q 009534          461 --RALPFPHLKELHVTLCPKLKK  481 (532)
Q Consensus       461 --~~~~~p~L~~L~i~~C~~L~~  481 (532)
                        ....+|.|+.|+++.| .+..
T Consensus       272 la~a~~~~~L~~LdLs~n-~L~d  293 (362)
T 2ra8_A          272 FLESDILPQLETMDISAG-VLTD  293 (362)
T ss_dssp             HHHCSSGGGCSEEECCSS-CCBH
T ss_pred             HHhCccCCCCCEEECCCC-CCCh
Confidence              1235899999999764 4443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.58  E-value=7.5e-05  Score=66.81  Aligned_cols=46  Identities=24%  Similarity=0.368  Sum_probs=41.6

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|+++.++.+.+++.....+.+-|+|+.|+|||++|+.+++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999987767778899999999999999998876

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.57  E-value=0.00034  Score=68.14  Aligned_cols=79  Identities=10%  Similarity=0.032  Sum_probs=58.8

Q ss_pred             cccccHHHHHHHHHHhcc----CCceEEEEecCCCCcHHHHHHHHHHhccCCCC---CCC--eEEEEEeCCCCCHHHHHH
Q 009534          148 TVVGLQSTLDRVWRCLTE----EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPN---NFD--FVIWEVVSRDLQLGKIQE  218 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~---~F~--~~~wv~v~~~~~~~~l~~  218 (532)
                      .+.||+++++.+...|..    +....+-|+|+.|+|||++++.+.++. ....   ...  ..+.|......+...+..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L-~~~~~~~~~~~~~~v~INc~~~~t~~~~~~   99 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDEL-ITSSARKELPIFDYIHIDALELAGMDALYE   99 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHH-HHTTTTTSSCCEEEEEEETTCCC--HHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHH-HHHhhhccCCceEEEEEeccccCCHHHHHH
Confidence            379999999999887753    577888999999999999999999987 3211   111  244555556678889999


Q ss_pred             HHHHHhcCC
Q 009534          219 SIAKKIGLC  227 (532)
Q Consensus       219 ~i~~~l~~~  227 (532)
                      .|.+++...
T Consensus       100 ~I~~~L~g~  108 (318)
T 3te6_A          100 KIWFAISKE  108 (318)
T ss_dssp             HHHHHHSCC
T ss_pred             HHHHHhcCC
Confidence            999999654

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.45  E-value=0.00011  Score=65.37  Aligned_cols=46  Identities=24%  Similarity=0.347  Sum_probs=41.4

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|++++++.+.+.+.....+.+-|+|+.|+|||++|+.+.+..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999987767777899999999999999998876

>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=97.43  E-value=0.00024  Score=65.15  Aligned_cols=46  Identities=20%  Similarity=0.296  Sum_probs=41.0

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|+++.++.+.+++.......+-|+|+.|+|||++|+.+++..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999987766569999999999999999999875

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.23  E-value=0.0029  Score=64.05  Aligned_cols=161  Identities=14%  Similarity=0.118  Sum_probs=86.4

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCc------------cccccccCCCCCccEEEE
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGE------------VKRIRETHGFFSLHKVSI  390 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~------------~~~~~~~~~l~~L~~L~l  390 (532)
                      ++|+.+.+..  .++.++...|.++++|+.+.+.+  +++.++.....+.            .-.......+++|+.+.+
T Consensus       203 ~~L~~l~lp~--~l~~I~~~aF~~~~~L~~l~l~~--~l~~I~~~aF~~~~L~~i~lp~~i~~I~~~aF~~c~~L~~l~l  278 (401)
T 4fdw_A          203 AGIEEVLLPV--TLKEIGSQAFLKTSQLKTIEIPE--NVSTIGQEAFRESGITTVKLPNGVTNIASRAFYYCPELAEVTT  278 (401)
T ss_dssp             CCCSEEECCT--TCCEECTTTTTTCTTCCCEECCT--TCCEECTTTTTTCCCSEEEEETTCCEECTTTTTTCTTCCEEEE
T ss_pred             cccCEEEeCC--chheehhhHhhCCCCCCEEecCC--CccCccccccccCCccEEEeCCCccEEChhHhhCCCCCCEEEe
Confidence            5577777763  46677666677777777777754  3444433222200            000111224556666666


Q ss_pred             eCCccc-----cCC--chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCc
Q 009534          391 WGSKLR-----HVT--WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRAL  463 (532)
Q Consensus       391 ~~c~L~-----~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~  463 (532)
                      .++.+.     .++  .+..+++|+.+.+.  .+++.|..            ..+..+++|+.+.|.+  +++.+....+
T Consensus       279 ~~~~~~~~~~~~I~~~aF~~c~~L~~l~l~--~~i~~I~~------------~aF~~c~~L~~l~lp~--~l~~I~~~aF  342 (401)
T 4fdw_A          279 YGSTFNDDPEAMIHPYCLEGCPKLARFEIP--ESIRILGQ------------GLLGGNRKVTQLTIPA--NVTQINFSAF  342 (401)
T ss_dssp             ESSCCCCCTTCEECTTTTTTCTTCCEECCC--TTCCEECT------------TTTTTCCSCCEEEECT--TCCEECTTSS
T ss_pred             CCccccCCcccEECHHHhhCCccCCeEEeC--CceEEEhh------------hhhcCCCCccEEEECc--cccEEcHHhC
Confidence            554222     122  14556666666664  23444433            3566677888888754  4677765433


Q ss_pred             -CCCCccEEeecCCCCCCCCCCCCCCCC-CceeEEecchhhhhh
Q 009534          464 -PFPHLKELHVTLCPKLKKLPFDCTSGH-ERKLIIKGQEEWWNN  505 (532)
Q Consensus       464 -~~p~L~~L~i~~C~~L~~lp~~~~~~l-~~L~~~~~~~~w~~~  505 (532)
                       .+ +|+.+.+.+. .+..++.+....+ ..+..+..+....+.
T Consensus       343 ~~~-~L~~l~l~~n-~~~~l~~~~F~~~~~~l~~l~vp~~~~~~  384 (401)
T 4fdw_A          343 NNT-GIKEVKVEGT-TPPQVFEKVWYGFPDDITVIRVPAESVEK  384 (401)
T ss_dssp             SSS-CCCEEEECCS-SCCBCCCSSCCCSCTTCCEEEECGGGHHH
T ss_pred             CCC-CCCEEEEcCC-CCcccccccccCCCCCccEEEeCHHHHHH
Confidence             45 8888888775 4445544333222 345556666554433

>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=97.11  E-value=0.00039  Score=64.57  Aligned_cols=46  Identities=24%  Similarity=0.286  Sum_probs=40.6

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|++..++.+.+++..++ .+.+.|+|++|+||||+|+.+++..
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   69 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   69 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999997654 4578999999999999999999877

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.09  E-value=3.5e-05  Score=77.47  Aligned_cols=137  Identities=14%  Similarity=0.107  Sum_probs=85.5

Q ss_pred             cCCCeEEEecCCCCCccccccc-cccccccceeeccccCcceeeecccCCcccccccc-CCCCCccEEEEeCCccccCC-
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTL-ASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRET-HGFFSLHKVSIWGSKLRHVT-  399 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l-~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~-~~l~~L~~L~l~~c~L~~l~-  399 (532)
                      ++|++|+|++|. +.......+ ..+++|+.|++++| .+.........      ... ...++|++|++++|.++... 
T Consensus       101 ~~L~~L~Ls~n~-l~~~~~~~l~~~L~~L~~L~Ls~n-~l~~~~~~~L~------~~L~~~~~~L~~L~Ls~n~l~~~~~  172 (372)
T 3un9_A          101 HALDEVNLASCQ-LDPAGLRTLLPVFLRARKLGLQLN-SLGPEACKDLR------DLLLHDQCQITTLRLSNNPLTAAGV  172 (372)
T ss_dssp             SCEEEEECTTCC-CCHHHHHHTHHHHHTEEEEECCSS-CCCHHHHHHHH------HHHHSTTCCCCEEECCSSCCHHHHH
T ss_pred             CCceEEEecCCC-CCHHHHHHHHHHHHhccHhhcCCC-CCCHHHHHHHH------HHHHhcCCccceeeCCCCCCChHHH
Confidence            469999999975 554322223 45778999999987 34322211110      000 13578999999999776521 


Q ss_pred             -----chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccC-----CCCcCCCCcc
Q 009534          400 -----WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIY-----PRALPFPHLK  469 (532)
Q Consensus       400 -----~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~-----~~~~~~p~L~  469 (532)
                           .+...++|++|++++|. +......    ..    ...+...++|+.|++++|. ++...     ......++|+
T Consensus       173 ~~l~~~L~~~~~L~~L~Ls~N~-l~~~g~~----~L----~~~L~~~~~L~~L~Ls~N~-i~~~g~~~l~~~L~~~~~L~  242 (372)
T 3un9_A          173 AVLMEGLAGNTSVTHLSLLHTG-LGDEGLE----LL----AAQLDRNRQLQELNVAYNG-AGDTAALALARAAREHPSLE  242 (372)
T ss_dssp             HHHHHHHHTCSSCCEEECTTSS-CHHHHHH----HH----HHHGGGCSCCCEEECCSSC-CCHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHhcCCCcCEEeCCCCC-CCcHHHH----HH----HHHHhcCCCcCeEECCCCC-CCHHHHHHHHHHHHhCCCCC
Confidence                 14678999999998875 4332110    00    0145567899999999873 44321     1223468999


Q ss_pred             EEeecCCC
Q 009534          470 ELHVTLCP  477 (532)
Q Consensus       470 ~L~i~~C~  477 (532)
                      +|++++|+
T Consensus       243 ~L~Ls~N~  250 (372)
T 3un9_A          243 LLHLYFNE  250 (372)
T ss_dssp             EEECTTSS
T ss_pred             EEeccCCC
Confidence            99999985

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=97.09  E-value=3.2e-05  Score=77.77  Aligned_cols=134  Identities=17%  Similarity=0.165  Sum_probs=86.7

Q ss_pred             ccCCCeEEEecCCCCCccccccccc-----cccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccc
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLAS-----LRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLR  396 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~-----l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~  396 (532)
                      +++|+.|++++|. +.......+..     .++|+.|++++|. +........         ...+++|++|++++|.+.
T Consensus        71 ~~~L~~L~Ls~n~-l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~-l~~~~~~~l---------~~~L~~L~~L~Ls~n~l~  139 (372)
T 3un9_A           71 LSSLRQLNLAGVR-MTPVKCTVVAAVLGSGRHALDEVNLASCQ-LDPAGLRTL---------LPVFLRARKLGLQLNSLG  139 (372)
T ss_dssp             HTTCCEEECTTSC-CCHHHHHHHHHHHSSCSSCEEEEECTTCC-CCHHHHHHT---------HHHHHTEEEEECCSSCCC
T ss_pred             HhhCCEEEecCCC-CCHHHHHHHHHHHhhCCCCceEEEecCCC-CCHHHHHHH---------HHHHHhccHhhcCCCCCC
Confidence            4569999999976 66554443433     2689999999984 332111111         124678999999999876


Q ss_pred             cCC--ch-----hcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccccc-----CCCCcC
Q 009534          397 HVT--WL-----ILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSI-----YPRALP  464 (532)
Q Consensus       397 ~l~--~l-----~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i-----~~~~~~  464 (532)
                      ...  .+     ...++|++|++++|. +.......-        ...+...++|++|+|+++. +...     +.....
T Consensus       140 ~~~~~~L~~~L~~~~~~L~~L~Ls~n~-l~~~~~~~l--------~~~L~~~~~L~~L~Ls~N~-l~~~g~~~L~~~L~~  209 (372)
T 3un9_A          140 PEACKDLRDLLLHDQCQITTLRLSNNP-LTAAGVAVL--------MEGLAGNTSVTHLSLLHTG-LGDEGLELLAAQLDR  209 (372)
T ss_dssp             HHHHHHHHHHHHSTTCCCCEEECCSSC-CHHHHHHHH--------HHHHHTCSSCCEEECTTSS-CHHHHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHhcCCccceeeCCCCC-CChHHHHHH--------HHHHhcCCCcCEEeCCCCC-CCcHHHHHHHHHHhc
Confidence            532  12     246889999999885 433211000        0144567899999999874 4432     223445


Q ss_pred             CCCccEEeecCC
Q 009534          465 FPHLKELHVTLC  476 (532)
Q Consensus       465 ~p~L~~L~i~~C  476 (532)
                      .++|+.|++++|
T Consensus       210 ~~~L~~L~Ls~N  221 (372)
T 3un9_A          210 NRQLQELNVAYN  221 (372)
T ss_dssp             CSCCCEEECCSS
T ss_pred             CCCcCeEECCCC
Confidence            679999999986

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=96.96  E-value=0.004  Score=63.05  Aligned_cols=143  Identities=13%  Similarity=0.156  Sum_probs=72.4

Q ss_pred             CCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--hh
Q 009534          325 TPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LI  402 (532)
Q Consensus       325 L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~  402 (532)
                      |+.+.+.+  +++.++...|.++++|+.+.+.+. .++.++.....           ..+|+.+.|.++ ++.++.  +.
T Consensus       159 L~~i~lp~--~l~~I~~~aF~~c~~L~~l~l~~n-~l~~I~~~aF~-----------~~~L~~l~lp~~-l~~I~~~aF~  223 (401)
T 4fdw_A          159 VQEIVFPS--TLEQLKEDIFYYCYNLKKADLSKT-KITKLPASTFV-----------YAGIEEVLLPVT-LKEIGSQAFL  223 (401)
T ss_dssp             CCEEECCT--TCCEECSSTTTTCTTCCEEECTTS-CCSEECTTTTT-----------TCCCSEEECCTT-CCEECTTTTT
T ss_pred             ceEEEeCC--CccEehHHHhhCcccCCeeecCCC-cceEechhhEe-----------ecccCEEEeCCc-hheehhhHhh
Confidence            55555543  455555445555555555555442 34444443322           345555555432 333322  44


Q ss_pred             cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCC-cCCCCccEEeecCCC----
Q 009534          403 LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRA-LPFPHLKELHVTLCP----  477 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C~----  477 (532)
                      .+++|+.+.+.+  +++.|..            ..+.. .+|+.+.+.+  +++.++... ..|++|+.+.+.+..    
T Consensus       224 ~~~~L~~l~l~~--~l~~I~~------------~aF~~-~~L~~i~lp~--~i~~I~~~aF~~c~~L~~l~l~~~~~~~~  286 (401)
T 4fdw_A          224 KTSQLKTIEIPE--NVSTIGQ------------EAFRE-SGITTVKLPN--GVTNIASRAFYYCPELAEVTTYGSTFNDD  286 (401)
T ss_dssp             TCTTCCCEECCT--TCCEECT------------TTTTT-CCCSEEEEET--TCCEECTTTTTTCTTCCEEEEESSCCCCC
T ss_pred             CCCCCCEEecCC--CccCccc------------ccccc-CCccEEEeCC--CccEEChhHhhCCCCCCEEEeCCccccCC
Confidence            556666666643  3444433            23333 5677776632  466665533 357777777776532    


Q ss_pred             CCCCCCCCCCCCCCceeEEecc
Q 009534          478 KLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       478 ~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      .+..++......+.+|+.+..+
T Consensus       287 ~~~~I~~~aF~~c~~L~~l~l~  308 (401)
T 4fdw_A          287 PEAMIHPYCLEGCPKLARFEIP  308 (401)
T ss_dssp             TTCEECTTTTTTCTTCCEECCC
T ss_pred             cccEECHHHhhCCccCCeEEeC
Confidence            1224555444445666666655

>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=96.73  E-value=0.0014  Score=64.17  Aligned_cols=46  Identities=22%  Similarity=0.306  Sum_probs=41.2

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|+++.++.+.+++..+....+-++|+.|+||||+|+.+++..
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            4589999999999999988766568999999999999999999886

>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=96.72  E-value=0.0011  Score=64.59  Aligned_cols=46  Identities=26%  Similarity=0.427  Sum_probs=41.0

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|++..++.+.+++..++...+-++|++|+||||+|+.+++..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            4689999999999999988765558999999999999999999886

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.61  E-value=0.002  Score=61.86  Aligned_cols=46  Identities=26%  Similarity=0.400  Sum_probs=39.1

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+.+..             ...+-+-|+|+.|+|||++|+.+.+..
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~   75 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET   75 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            5689999999999888743             245668899999999999999999887

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.53  E-value=0.0024  Score=54.52  Aligned_cols=45  Identities=24%  Similarity=0.269  Sum_probs=35.1

Q ss_pred             cccccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|+...++++.+.+..  ....-|-|+|..|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            478999888888887743  233446799999999999999999875

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.51  E-value=0.0021  Score=66.55  Aligned_cols=46  Identities=26%  Similarity=0.380  Sum_probs=40.1

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|++++++.+++.+......-+-++|..|+|||++|+.+....
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999976655556799999999999999999886

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.38  E-value=0.0038  Score=57.83  Aligned_cols=60  Identities=10%  Similarity=0.029  Sum_probs=41.9

Q ss_pred             Cccccc---HHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          147 PTVVGL---QSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       147 ~~~vGr---~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      ++++|.   +..++.+.++...+..+.+-|+|+.|+||||+|+.+.+...   .....+.|+..+.
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~---~~~~~~~~~~~~~   90 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARAN---ELERRSFYIPLGI   90 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEEGGG
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEHHH
Confidence            356663   35566666666655677889999999999999999998872   2233456676543

>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=96.28  E-value=0.0026  Score=62.99  Aligned_cols=46  Identities=17%  Similarity=0.297  Sum_probs=40.3

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|+++.++.+..++..+....+-++|+.|+||||+|+.+.+..
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999987755558999999999999999998875

>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=96.21  E-value=0.0058  Score=57.57  Aligned_cols=46  Identities=22%  Similarity=0.203  Sum_probs=35.9

Q ss_pred             CcccccHHHHHHHHHHhc---c---------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT---E---------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+++.   .         ...+-+-++|+.|+|||++|+.+++..
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~   63 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA   63 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            568999988777766542   1         133457799999999999999999987

>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=96.18  E-value=0.005  Score=59.68  Aligned_cols=46  Identities=28%  Similarity=0.340  Sum_probs=38.3

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+++..             ...+.+-++|+.|+|||++|+.+++..
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~   73 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC   73 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh
Confidence            4689999888888877642             245678999999999999999999976

>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=96.17  E-value=0.003  Score=61.45  Aligned_cols=46  Identities=20%  Similarity=0.296  Sum_probs=40.5

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|++..++.+.+++..+....+-++|+.|+|||++|+.+.+..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            4589999999999999887765558999999999999999999876

>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=96.16  E-value=0.0045  Score=61.73  Aligned_cols=46  Identities=24%  Similarity=0.286  Sum_probs=40.3

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|+++.++.+.+++..++ .+.+-|+|+.|+||||+|+.+.+..
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l   62 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   62 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999997764 4578899999999999999998877

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.13  E-value=0.006  Score=58.82  Aligned_cols=46  Identities=20%  Similarity=0.260  Sum_probs=38.5

Q ss_pred             CcccccHHHHHHHHHHhcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+.+++..            ...+.+-|+|+.|+||||+|+.+.+..
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~   78 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC   78 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            4689999999998887632            135678899999999999999999876

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.11  E-value=0.005  Score=59.72  Aligned_cols=45  Identities=27%  Similarity=0.442  Sum_probs=36.3

Q ss_pred             cccccHHHHHHHHHHhc---------------cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLT---------------EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~---------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++|.++.++.+.+.+.               .....-+-|+|+.|+|||++|+.+.+..
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l   91 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLL   91 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            57999988888877653               2344568899999999999999888776

>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=96.10  E-value=0.0049  Score=64.58  Aligned_cols=46  Identities=24%  Similarity=0.345  Sum_probs=40.0

Q ss_pred             CcccccHHHHHHHHHHhcc-----------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-----------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|+++.++.+.+++..                 +..+.+-|+|+.|+||||+|+.+.+..
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999865                 134789999999999999999999876

>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=96.06  E-value=0.0041  Score=55.11  Aligned_cols=41  Identities=22%  Similarity=0.195  Sum_probs=30.3

Q ss_pred             cHHHHHHHHHHhcc---CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          152 LQSTLDRVWRCLTE---EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       152 r~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.++.+.+++.+   .....+.|+|+.|+||||||+.+++..
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            34444555555533   245789999999999999999999876

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.04  E-value=0.0056  Score=60.25  Aligned_cols=46  Identities=24%  Similarity=0.289  Sum_probs=39.0

Q ss_pred             CcccccHHHHHHHHHHhcc-----CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-----EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|++..++.+..++..     .....+-|+|+.|+|||++|+.+.+..
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~   79 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM   79 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            4689999999998888863     345568899999999999999998876

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.04  E-value=0.007  Score=54.63  Aligned_cols=51  Identities=27%  Similarity=0.185  Sum_probs=35.4

Q ss_pred             HHHHHHHHHhccC----CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEe
Q 009534          154 STLDRVWRCLTEE----PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVV  207 (532)
Q Consensus       154 ~~~~~l~~~L~~~----~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v  207 (532)
                      ..++.+.+++...    ....+-|+|..|+|||+||+.+++...   .....++|+.+
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~---~~~~~~~~~~~   90 (202)
T 2w58_A           36 KAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA---KRNVSSLIVYV   90 (202)
T ss_dssp             HHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH---TTTCCEEEEEH
T ss_pred             HHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEh
Confidence            3445555565543    126788999999999999999999883   33345666654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.00  E-value=0.005  Score=63.15  Aligned_cols=46  Identities=28%  Similarity=0.318  Sum_probs=40.6

Q ss_pred             CcccccHHHH---HHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTL---DRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..+   ..+...+..+....+-++|+.|+||||+|+.+.+..
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~   74 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA   74 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh
Confidence            4589998888   778888888888889999999999999999999887

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=95.99  E-value=0.0041  Score=60.72  Aligned_cols=46  Identities=28%  Similarity=0.435  Sum_probs=38.7

Q ss_pred             CcccccHHHHHHHHHHhcc-----CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-----EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|++..++.+.+++..     .....+-|+|+.|+|||++|+.+++..
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~   62 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   62 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999998888887752     244678899999999999999999877

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=95.84  E-value=0.0081  Score=59.74  Aligned_cols=46  Identities=20%  Similarity=0.219  Sum_probs=38.7

Q ss_pred             CcccccHHHHHHHHHHhcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++.+.+.+..            ...+-+-|+|+.|+|||++|+.+.+..
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~  141 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS  141 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999998887742            245678899999999999999998876

>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=95.83  E-value=0.0055  Score=68.42  Aligned_cols=46  Identities=26%  Similarity=0.375  Sum_probs=40.6

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||+++++.+++.+......-+.++|..|+|||++|+.+.+..
T Consensus       170 d~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            4589999999999999987666667899999999999999998876

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.81  E-value=0.01  Score=58.09  Aligned_cols=46  Identities=22%  Similarity=0.324  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHhcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+.+..            ...+-+-++|+.|+|||++|+++++..
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc
Confidence            5689999888888877631            124678899999999999999999876

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=95.79  E-value=0.0094  Score=59.33  Aligned_cols=46  Identities=22%  Similarity=0.314  Sum_probs=37.0

Q ss_pred             CcccccHHHHHH---HHHHhccCCc--eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDR---VWRCLTEEPV--GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~---l~~~L~~~~~--~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|++..++.   +.+.+..+..  +.+-|+|+.|+|||++|+.+.+..
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999988666   4555555433  588999999999999999999988

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.79  E-value=0.0073  Score=66.53  Aligned_cols=46  Identities=26%  Similarity=0.380  Sum_probs=40.2

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|++++++.+.+.+......-+-++|..|+|||++|+.+.+..
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999977655557799999999999999998875

>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=95.78  E-value=0.0081  Score=58.06  Aligned_cols=46  Identities=20%  Similarity=0.231  Sum_probs=38.3

Q ss_pred             CcccccHHHHHHHHHHhcc--------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE--------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|.++.++.+...+..              ....-+-++|..|+|||++|+.+.+..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999998887754              234567799999999999999999877

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.77  E-value=0.011  Score=57.74  Aligned_cols=46  Identities=24%  Similarity=0.375  Sum_probs=38.1

Q ss_pred             CcccccHHHHHHHHHHhcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+.+..            ...+-+-++|+.|+|||++|+++.+..
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~   75 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA   75 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            5689999999999888721            124568899999999999999999987

>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=95.74  E-value=0.005  Score=61.00  Aligned_cols=46  Identities=17%  Similarity=0.135  Sum_probs=38.8

Q ss_pred             CcccccHHHHHHHHHHh-ccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCL-TEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L-~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+.+++ ..++...+.|+|+.|+||||+|+.+....
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999988 66554449999999999999999998854

>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=95.70  E-value=0.0097  Score=65.56  Aligned_cols=46  Identities=24%  Similarity=0.333  Sum_probs=40.7

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||+++++.+++.|......-+-++|..|+|||++|+.+....
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            4679999999999999987666667899999999999999998876

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=95.68  E-value=0.0029  Score=53.93  Aligned_cols=46  Identities=15%  Similarity=0.084  Sum_probs=33.3

Q ss_pred             CcccccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.++|++..++++.+.+..  ....-|-|+|..|+|||++|+.+++..
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            3578998888888887653  233346699999999999999997765

>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=95.65  E-value=0.0095  Score=58.72  Aligned_cols=46  Identities=22%  Similarity=0.372  Sum_probs=39.6

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+..++..++..-+.++|+.|+||||+|+.+....
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3568998888999888887765558999999999999999999886

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.64  E-value=0.013  Score=53.03  Aligned_cols=41  Identities=24%  Similarity=0.445  Sum_probs=33.3

Q ss_pred             cHHHHHHHHHHhcc---CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          152 LQSTLDRVWRCLTE---EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       152 r~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |++.++.+.+.+..   ....+++|.|..|+||||+++.+....
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45667777777764   356899999999999999999998765

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=95.58  E-value=0.0098  Score=55.98  Aligned_cols=46  Identities=26%  Similarity=0.236  Sum_probs=35.1

Q ss_pred             CcccccHHHHHHHHHHh---cc---------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCL---TE---------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+.+   ..         ...+-+.|+|+.|+||||+|+.+.+..
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   69 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA   69 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc
Confidence            46899988777766543   22         123457899999999999999999877

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=95.45  E-value=0.0031  Score=59.77  Aligned_cols=36  Identities=14%  Similarity=-0.008  Sum_probs=26.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.-|.|-+.....|++|.+.+-+..   ...|..+-|=
T Consensus        23 ~w~kv~I~~g~ky~k~~ll~~i~~~~---~~~f~p~~~~   58 (267)
T 3rw6_A           23 NWFKITIPYGRKYDKAWLLSMIQSKC---SVPFTPIEFH   58 (267)
T ss_dssp             CCEEEEETTGGGSCHHHHHHHHHHTC---SSCCCCEEEE
T ss_pred             CeEEEEecCccccCHHHHHHHHHHhC---CCCcEeEEEE
Confidence            34567788877888999999997765   3567666554

>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=95.45  E-value=0.0089  Score=58.82  Aligned_cols=46  Identities=28%  Similarity=0.344  Sum_probs=36.4

Q ss_pred             CcccccHHHHHHHHHHhcc-----CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-----EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|.+..++.+...+..     .....+.++|+.|+||||||+.+.+..
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            3568888777776666543     244679999999999999999999987

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=95.40  E-value=0.011  Score=56.03  Aligned_cols=33  Identities=21%  Similarity=0.318  Sum_probs=17.3

Q ss_pred             CCCccEEEEeCCccccCCc----hhcCCCcceeeecc
Q 009534          382 FFSLHKVSIWGSKLRHVTW----LILAPNLKLIQMYD  414 (532)
Q Consensus       382 l~~L~~L~l~~c~L~~l~~----l~~l~~L~~L~l~~  414 (532)
                      +++|+.|+|++|++..++.    +..+++|+.|+|++
T Consensus       169 l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~  205 (267)
T 3rw6_A          169 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSG  205 (267)
T ss_dssp             CTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTT
T ss_pred             CCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCC
Confidence            5555666665555544332    23555666666643

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.38  E-value=0.015  Score=55.40  Aligned_cols=45  Identities=27%  Similarity=0.341  Sum_probs=34.0

Q ss_pred             CcccccHHHHHHHHHHhcc-------------C-CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------E-PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~-~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.|.++.++.+.+.+..             . ... +.++|+.|+||||||+.+....
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G-vlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG-VLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE-EEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe-EEEECCCCCcHHHHHHHHHHHc
Confidence            5678888888887765421             1 223 8999999999999999999876

>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=95.29  E-value=0.018  Score=56.25  Aligned_cols=46  Identities=13%  Similarity=0.032  Sum_probs=39.8

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+++..++ .+++-+.|+.|+|||++|+.+.+..
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l   72 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV   72 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            468999999999999998765 4677778889999999999998876

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.29  E-value=0.012  Score=57.08  Aligned_cols=60  Identities=23%  Similarity=0.378  Sum_probs=44.0

Q ss_pred             CcccccHHHHHHHHHHhccC---------CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          147 PTVVGLQSTLDRVWRCLTEE---------PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      ..++|.+..++.+...+...         ....+.++|..|+|||++|+.+.....   ..-...+.+..+.
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~---~~~~~~~~~~~~~   85 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF---DTEEAMIRIDMTE   85 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH---SCGGGEEEEEGGG
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc---CCCcceEEeeccc
Confidence            46789999988888887542         135799999999999999999998872   2222345555544

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=95.22  E-value=0.018  Score=57.91  Aligned_cols=46  Identities=20%  Similarity=0.233  Sum_probs=38.4

Q ss_pred             CcccccHHHHHHHHHHhcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+..++.+.+++..            ...+-+-|+|..|+|||++|+.+.+..
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~  172 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES  172 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999988731            134678899999999999999998876

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=95.21  E-value=0.021  Score=54.24  Aligned_cols=46  Identities=24%  Similarity=0.235  Sum_probs=34.8

Q ss_pred             CcccccHHHHHHHHH-------Hhc---cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWR-------CLT---EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~-------~L~---~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|....++.+++       .+.   ....+-+-|+|+.|+|||++|+.+.+..
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~   88 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   88 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            356777766666665       332   3356778899999999999999999976

>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=95.21  E-value=0.01  Score=56.16  Aligned_cols=46  Identities=22%  Similarity=0.171  Sum_probs=35.1

Q ss_pred             CcccccHHHHHHHHHHhcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+.+..            ...+-+-++|+.|+|||++|+.+++..
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            4689988777777765531            113346799999999999999999987

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.18  E-value=0.018  Score=58.44  Aligned_cols=46  Identities=22%  Similarity=0.290  Sum_probs=37.6

Q ss_pred             CcccccHHHHHHHHHHhc----c---------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT----E---------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|.++.++.|.+.+.    .         ...+=|-++|++|+|||.+|+++.+..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~  239 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT  239 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh
Confidence            467899999888887653    1         135668889999999999999999987

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.18  E-value=0.02  Score=58.09  Aligned_cols=46  Identities=26%  Similarity=0.380  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|.++.++.|.+.+.-             ...+=|-++|++|+|||++|+++.+..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~  239 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI  239 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            4678899888888776632             135668889999999999999999988

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=95.17  E-value=0.018  Score=57.12  Aligned_cols=46  Identities=24%  Similarity=0.375  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHhcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++.+.+.+..            ...+-+-++|+.|+|||++|+++++..
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~  108 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA  108 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            4689999999998887631            123457889999999999999999987

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.16  E-value=0.019  Score=52.15  Aligned_cols=38  Identities=26%  Similarity=0.321  Sum_probs=30.2

Q ss_pred             HHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          155 TLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       155 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -+++|.+.+..  +...+++|+|..|.|||||++.+....
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45556666553  356899999999999999999998776

>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=95.15  E-value=0.024  Score=58.06  Aligned_cols=46  Identities=22%  Similarity=0.324  Sum_probs=38.2

Q ss_pred             CcccccHHHHHHHHHHhcc------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+.+..            ...+-+-++|+.|+|||++|+++++..
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~  191 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA  191 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            5689999999998887631            234678899999999999999999876

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.13  E-value=0.019  Score=58.23  Aligned_cols=46  Identities=33%  Similarity=0.421  Sum_probs=37.5

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|.++.++.|.+.+.-             ...+=+-++|++|+|||++|+++.+..
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~  230 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST  230 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4678999988888876632             135558899999999999999999987

>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=95.12  E-value=0.014  Score=55.12  Aligned_cols=46  Identities=15%  Similarity=0.182  Sum_probs=33.9

Q ss_pred             CcccccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|.+..+..+.+.+..  ....-+-|+|..|+|||++|+.+++..
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            4578999888888776642  233556799999999999999999876

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.07  E-value=0.033  Score=57.75  Aligned_cols=44  Identities=14%  Similarity=0.144  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|.++.++.+...+..+  .-+-++|++|+|||++|+.+.+..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHH
Confidence            56899999998888887654  357789999999999999999876

>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=95.07  E-value=0.012  Score=51.32  Aligned_cols=23  Identities=22%  Similarity=0.401  Sum_probs=20.3

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|.|+.|+||||+|+.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            47899999999999999999 544

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.98  E-value=0.024  Score=51.90  Aligned_cols=39  Identities=23%  Similarity=0.336  Sum_probs=30.9

Q ss_pred             HHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          154 STLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       154 ~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+.+.+.+.......|.|+|.+|+|||||+..+....
T Consensus        24 ~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           24 RLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344555555555678899999999999999999998876

>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=94.92  E-value=0.099  Score=53.38  Aligned_cols=45  Identities=27%  Similarity=0.302  Sum_probs=31.4

Q ss_pred             ccc-ccH--HHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVV-GLQ--STLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~v-Gr~--~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+ |..  .....+.......+ ...+.|+|+.|+||||||+.+++..
T Consensus       106 ~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l  154 (440)
T 2z4s_A          106 NFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYV  154 (440)
T ss_dssp             GCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            445 633  23334444444433 6788999999999999999999877

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.90  E-value=0.02  Score=57.34  Aligned_cols=46  Identities=26%  Similarity=0.294  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|.++.++++.+.+.-             ...+=+-++|++|+|||.+|+++.+..
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~  206 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT  206 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh
Confidence            4578899888888776532             134567789999999999999999987

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=94.89  E-value=0.024  Score=54.85  Aligned_cols=46  Identities=13%  Similarity=0.229  Sum_probs=36.8

Q ss_pred             CcccccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|....+.++.+.+..  ....-+-|+|..|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            4579999888888887753  334456799999999999999999865

>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=94.88  E-value=0.015  Score=50.64  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=22.0

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999998876

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.85  E-value=0.025  Score=57.41  Aligned_cols=46  Identities=24%  Similarity=0.364  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|.++.+++|.+.+.-             ...+=|-++|++|+|||++|+++.+..
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~  267 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT  267 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            3578899888888776521             245667899999999999999999987

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=94.77  E-value=0.013  Score=50.15  Aligned_cols=39  Identities=15%  Similarity=0.124  Sum_probs=29.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVS  208 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~  208 (532)
                      .-..+.|+|..|+|||||++.++... .. ..+ ..+++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~-~~-~g~-~~~~~~~~   73 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA-LE-AGK-NAAYIDAA   73 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH-HT-TTC-CEEEEETT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH-Hh-cCC-cEEEEcHH
Confidence            45689999999999999999999987 32 122 25666543

>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=94.77  E-value=0.017  Score=50.76  Aligned_cols=24  Identities=17%  Similarity=0.339  Sum_probs=22.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            578999999999999999998876

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.71  E-value=0.024  Score=51.73  Aligned_cols=44  Identities=20%  Similarity=0.246  Sum_probs=34.4

Q ss_pred             ccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          149 VVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       149 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-+.++..+.+.+.+...+..++.|+|.+|+|||||+..+....
T Consensus        11 l~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           11 LAENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HhhcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            34445556666666655678999999999999999999998876

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.68  E-value=0.036  Score=54.38  Aligned_cols=43  Identities=26%  Similarity=0.274  Sum_probs=32.6

Q ss_pred             cccHHHHHHHHHHhc----cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          150 VGLQSTLDRVWRCLT----EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       150 vGr~~~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |+.+.-++.+++.+.    .+....|.++|+.|+||||+++.+....
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            444555666666653    3456779999999999999999988876

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=94.67  E-value=0.024  Score=55.49  Aligned_cols=44  Identities=23%  Similarity=0.372  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|+++.++.+...+..+  .-+-++|..|+|||++|+.+.+..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh
Confidence            46899999999988888764  357789999999999999998876

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=94.58  E-value=0.019  Score=51.66  Aligned_cols=26  Identities=31%  Similarity=0.299  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|.|+|+.|+||||+|+.+....
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            35689999999999999999999876

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.58  E-value=0.034  Score=55.94  Aligned_cols=46  Identities=30%  Similarity=0.429  Sum_probs=37.2

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|.++.+++|.+.+.-             ...+=|-++|++|+|||.+|+++.+..
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~  240 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT  240 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh
Confidence            4578899888888776531             135668899999999999999999987

>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=94.53  E-value=0.11  Score=47.00  Aligned_cols=46  Identities=22%  Similarity=0.154  Sum_probs=34.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQE  218 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~  218 (532)
                      .-.++.|+|.+|+||||++..+....      -..++|++....++...+.+
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~~~------~~~v~~i~~~~~~~~~~~~~   64 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGLLS------GKKVAYVDTEGGFSPERLVQ   64 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH------CSEEEEEESSCCCCHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHc------CCcEEEEECCCCCCHHHHHH
Confidence            45689999999999999999998722      14688888766556655443

>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=94.53  E-value=0.046  Score=51.15  Aligned_cols=46  Identities=24%  Similarity=0.230  Sum_probs=32.8

Q ss_pred             CcccccHHHHHHHHHHhc---cC---------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT---EE---------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~---~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++++.+...   ..         -.+=+.|+|+.|+||||||+.+....
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            467888766665554432   10         01228899999999999999999876

>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=94.52  E-value=0.02  Score=51.03  Aligned_cols=26  Identities=31%  Similarity=0.307  Sum_probs=22.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|+||||+++.+....
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcc
Confidence            35789999999999999999997754

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=94.50  E-value=0.024  Score=49.81  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=20.6

Q ss_pred             eEEEEecCCCCcHHHHHHHHHH
Q 009534          169 GIVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      .+|.|.|+.|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999987

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.50  E-value=0.019  Score=50.18  Aligned_cols=24  Identities=29%  Similarity=0.342  Sum_probs=22.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+|+|+.|+||||+++.+....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=94.45  E-value=0.023  Score=50.31  Aligned_cols=25  Identities=20%  Similarity=0.319  Sum_probs=22.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -++++|+|+.|+|||||++.+....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998865

>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=94.35  E-value=0.043  Score=52.63  Aligned_cols=27  Identities=26%  Similarity=0.196  Sum_probs=24.0

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +...+|+|.|..|+||||+|+.+....
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999999987766

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=94.34  E-value=0.024  Score=50.16  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=22.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+.|.++|+.|+||||+|+.+....
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999998876

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=94.32  E-value=0.025  Score=50.29  Aligned_cols=24  Identities=33%  Similarity=0.545  Sum_probs=22.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999887

>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=94.32  E-value=0.041  Score=54.64  Aligned_cols=45  Identities=20%  Similarity=0.172  Sum_probs=36.8

Q ss_pred             cccccHHHHHHHHHHhc-------------c--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLT-------------E--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~-------------~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.+..++.+...+.             .  .....+-++|+.|+|||++|+.+.+..
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            46899999998888772             1  134568899999999999999999876

>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=94.30  E-value=0.031  Score=50.27  Aligned_cols=28  Identities=25%  Similarity=0.475  Sum_probs=24.8

Q ss_pred             cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          165 EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       165 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .....+|.|+|+.|.||||+++.+....
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3457899999999999999999998876

>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=94.27  E-value=0.046  Score=54.59  Aligned_cols=46  Identities=17%  Similarity=0.187  Sum_probs=36.4

Q ss_pred             CcccccHHHHHHHHHHhcc------------------------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE------------------------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------------------------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+...+..                              .....+-++|+.|+|||++|+.+.+..
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999888888877620                              123467899999999999999999876

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=94.26  E-value=0.15  Score=48.97  Aligned_cols=84  Identities=14%  Similarity=0.097  Sum_probs=45.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR-DLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFK  245 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  245 (532)
                      +..+++++|.+|+||||++..+.... ..... ..+..+.... .....+-+.......+.+..  ...+.......+. 
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l-~~~~G-~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~--~~~~~~~l~~al~-  178 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAIS-MLEKH-KKIAFITTDTYRIAAVEQLKTYAELLQAPLE--VCYTKEEFQQAKE-  178 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH-HHTTC-CCEEEEECCCSSTTHHHHHHHHHTTTTCCCC--BCSSHHHHHHHHH-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HHhcC-CEEEEEecCcccchHHHHHHHHHHhcCCCeE--ecCCHHHHHHHHH-
Confidence            45799999999999999999998766 21111 2345555322 22233323333333333221  1223334433333 


Q ss_pred             HhcCCcEEEe
Q 009534          246 TMRNTKFLIS  255 (532)
Q Consensus       246 ~L~~kr~LlV  255 (532)
                      .+.+..++|+
T Consensus       179 ~~~~~dlvIi  188 (296)
T 2px0_A          179 LFSEYDHVFV  188 (296)
T ss_dssp             HGGGSSEEEE
T ss_pred             HhcCCCEEEE
Confidence            3466788888

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.20  E-value=0.023  Score=51.22  Aligned_cols=25  Identities=24%  Similarity=0.446  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>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=94.19  E-value=0.027  Score=50.01  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=22.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|.|+.|+||||+++.+....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999998876

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=94.16  E-value=0.063  Score=51.07  Aligned_cols=45  Identities=29%  Similarity=0.401  Sum_probs=33.4

Q ss_pred             CcccccHHHHHHHHHHhc---cC----------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT---EE----------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~---~~----------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++++.+...   ..          ... +.|+|+.|+||||||+.+....
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~g-vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCE-EEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCcChHHHHHHHHHHHc
Confidence            467898876666555432   10          123 8899999999999999999877

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=94.14  E-value=0.03  Score=50.43  Aligned_cols=27  Identities=33%  Similarity=0.519  Sum_probs=23.5

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....+++|+|+.|+||||+++.+....
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            356799999999999999999998765

>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=94.14  E-value=0.029  Score=52.39  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+|+|+|+.|+||||+++.+....
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999766

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=94.13  E-value=0.11  Score=52.19  Aligned_cols=76  Identities=14%  Similarity=0.234  Sum_probs=35.1

Q ss_pred             CCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccC
Q 009534          382 FFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIY  459 (532)
Q Consensus       382 l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~  459 (532)
                      +++|+.+.+.. +++.++.  +..+.+|+.+.|.+  .++.|..            ..+..+.+|+.+.|-+  +++.|.
T Consensus       287 c~~L~~i~l~~-~i~~I~~~aF~~c~~L~~i~lp~--~v~~I~~------------~aF~~C~~L~~i~ip~--sv~~I~  349 (394)
T 4gt6_A          287 CPALQDIEFSS-RITELPESVFAGCISLKSIDIPE--GITQILD------------DAFAGCEQLERIAIPS--SVTKIP  349 (394)
T ss_dssp             CTTCCEEECCT-TCCEECTTTTTTCTTCCEEECCT--TCCEECT------------TTTTTCTTCCEEEECT--TCCBCC
T ss_pred             ccccccccCCC-cccccCceeecCCCCcCEEEeCC--cccEehH------------hHhhCCCCCCEEEECc--ccCEEh
Confidence            44555555532 2333322  34455555555532  2344432            2455555666665532  344554


Q ss_pred             CCC-cCCCCccEEeec
Q 009534          460 PRA-LPFPHLKELHVT  474 (532)
Q Consensus       460 ~~~-~~~p~L~~L~i~  474 (532)
                      ... ..|++|+.+.+.
T Consensus       350 ~~aF~~C~~L~~i~~~  365 (394)
T 4gt6_A          350 ESAFSNCTALNNIEYS  365 (394)
T ss_dssp             GGGGTTCTTCCEEEES
T ss_pred             HhHhhCCCCCCEEEEC
Confidence            422 245556665554

>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=94.13  E-value=0.063  Score=52.28  Aligned_cols=37  Identities=30%  Similarity=0.326  Sum_probs=28.4

Q ss_pred             HHHHHHHhccC--CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          156 LDRVWRCLTEE--PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       156 ~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+..++..+  ....+-|+|+.|+||||+|+.+++..
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~   61 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA   61 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            44445555443  35678899999999999999999877

>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=94.13  E-value=0.032  Score=48.85  Aligned_cols=25  Identities=24%  Similarity=0.482  Sum_probs=22.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.+++|+|+.|+||||+++.+....
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998765

>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=94.12  E-value=0.032  Score=49.66  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            5689999999999999999998876

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.09  E-value=0.034  Score=49.29  Aligned_cols=26  Identities=35%  Similarity=0.445  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|.|.|+.|+||||+++.+....
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998876

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=94.07  E-value=0.029  Score=50.34  Aligned_cols=23  Identities=26%  Similarity=0.629  Sum_probs=21.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|+.|+||||+++.+....
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68999999999999999999877

>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=94.04  E-value=0.029  Score=49.49  Aligned_cols=25  Identities=36%  Similarity=0.395  Sum_probs=22.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.|.|+.|+||||+|+.+....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4678899999999999999998876

>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=94.03  E-value=0.061  Score=55.26  Aligned_cols=46  Identities=24%  Similarity=0.261  Sum_probs=35.8

Q ss_pred             CcccccHHHHHHHHHH---hccC--CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRC---LTEE--PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~---L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+..+   +..+  ..+-+-++|+.|+|||++|+.+.+..
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            5689999887765444   4333  23567899999999999999999987

>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=94.02  E-value=0.027  Score=55.47  Aligned_cols=46  Identities=20%  Similarity=0.303  Sum_probs=34.3

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.+..++.+...+......-+-|+|..|+|||++|+.+.+..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhC
Confidence            4579998766655444433333348899999999999999999876

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=94.01  E-value=0.03  Score=50.38  Aligned_cols=25  Identities=20%  Similarity=0.384  Sum_probs=22.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.+++|+|+.|+|||||++.+....
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998764

>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=93.99  E-value=0.034  Score=49.42  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|+|+.|+||||+++.+....
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~~   26 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQL   26 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCcHHHHHHHHhccc
Confidence            478999999999999999997643

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=93.95  E-value=0.036  Score=49.32  Aligned_cols=25  Identities=28%  Similarity=0.311  Sum_probs=22.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>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=93.94  E-value=0.053  Score=56.12  Aligned_cols=46  Identities=24%  Similarity=0.342  Sum_probs=37.8

Q ss_pred             CcccccHHHHHHHHHHhcc-------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.+..++.+.+++..             ...+-+-|+|..|+|||++|+++.+..
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~  262 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  262 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh
Confidence            3579999999998887642             234568899999999999999998876

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=93.93  E-value=0.031  Score=50.50  Aligned_cols=26  Identities=31%  Similarity=0.516  Sum_probs=23.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.|+|+.|+||||+++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45789999999999999999998876

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.89  E-value=0.04  Score=49.58  Aligned_cols=26  Identities=23%  Similarity=0.400  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+|.|.|+.|+||||+|+.+....
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999998876

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=93.81  E-value=0.035  Score=49.48  Aligned_cols=26  Identities=27%  Similarity=0.344  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+|.|.|+.|+||||+|+.+....
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=93.78  E-value=0.031  Score=49.00  Aligned_cols=23  Identities=26%  Similarity=0.444  Sum_probs=21.4

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|+.|+||||+|+.+....
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998877

>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=93.77  E-value=0.042  Score=49.26  Aligned_cols=26  Identities=27%  Similarity=0.360  Sum_probs=22.9

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHh
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      ++..+|+|.|+.|+||||+|+.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            35789999999999999999998764

>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=93.77  E-value=0.038  Score=50.11  Aligned_cols=26  Identities=27%  Similarity=0.241  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+++|+|+.|+||||+++.+....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            45789999999999999999998876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.75  E-value=0.04  Score=49.91  Aligned_cols=26  Identities=27%  Similarity=0.399  Sum_probs=23.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+++|+|..|.|||||++.+....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998875

>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=93.75  E-value=0.037  Score=48.90  Aligned_cols=23  Identities=39%  Similarity=0.538  Sum_probs=21.1

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|+|..|+|||||++.+....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.73  E-value=0.038  Score=48.06  Aligned_cols=26  Identities=23%  Similarity=0.386  Sum_probs=22.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998876

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=93.73  E-value=0.037  Score=53.79  Aligned_cols=41  Identities=22%  Similarity=0.370  Sum_probs=29.8

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      ++.+||+|.|-|||||||.+..+.-... . .. ..+.-|+...
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA-~-~G-kkVllID~Dp   86 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFS-I-LG-KRVLQIGCDP   86 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHH-H-TT-CCEEEEEESS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHH-H-CC-CeEEEEecCC
Confidence            4689999999999999999998877663 1 11 2455566553

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=93.70  E-value=0.035  Score=50.00  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             eEEEEecCCCCcHHHHHHHHHH
Q 009534          169 GIVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      .+|+|.|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3799999999999999999987

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=93.70  E-value=0.044  Score=49.51  Aligned_cols=25  Identities=20%  Similarity=0.379  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999999887

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=93.69  E-value=0.041  Score=49.53  Aligned_cols=25  Identities=32%  Similarity=0.302  Sum_probs=22.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+++|+|+.|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998765

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=93.69  E-value=0.014  Score=52.03  Aligned_cols=36  Identities=8%  Similarity=0.119  Sum_probs=18.3

Q ss_pred             cCCCeEEEecCCCCCccccc----cccccccccceeeccc
Q 009534          323 SNTPSLSLTNCRSLSSLSVL----TLASLRHLEALDMRYC  358 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~----~l~~l~~L~~L~i~~c  358 (532)
                      ++|++|+|++|..+..-...    .+...++|++|++++|
T Consensus        36 ~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n   75 (185)
T 1io0_A           36 PDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT   75 (185)
T ss_dssp             TTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS
T ss_pred             CCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCC
Confidence            44777777665334432111    1333455666666655

>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=93.67  E-value=0.043  Score=48.66  Aligned_cols=25  Identities=24%  Similarity=0.232  Sum_probs=22.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      ....|.|+|+.|+||||+++.+...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3568999999999999999999887

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.67  E-value=0.04  Score=51.75  Aligned_cols=24  Identities=29%  Similarity=0.295  Sum_probs=21.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            478999999999999999998876

>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=93.66  E-value=0.038  Score=50.63  Aligned_cols=24  Identities=25%  Similarity=0.481  Sum_probs=22.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+|+|+.|+||||+|+.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998876

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.57  E-value=0.034  Score=48.70  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQIN  189 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~  189 (532)
                      .-.+++|+|+.|.|||||++.++
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            34689999999999999999644

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=93.54  E-value=0.046  Score=48.33  Aligned_cols=25  Identities=24%  Similarity=0.294  Sum_probs=22.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|.+.|+.|+||||+|+.+....
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999998766

>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=93.53  E-value=0.18  Score=46.49  Aligned_cols=57  Identities=14%  Similarity=0.219  Sum_probs=38.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCC----CCCeEEEEEeCCCCCHHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPN----NFDFVIWEVVSRDLQLGKIQESIAKKIG  225 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~v~~~~~~~~l~~~i~~~l~  225 (532)
                      .-.++.|+|..|+|||||++.+..... ...    .-..++|+.....++...+. .++..++
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~-~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g   83 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQ-LPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYG   83 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTT-SCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHh-CchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcC
Confidence            457899999999999999999988641 111    13578899877665555443 2334443

>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=93.52  E-value=0.035  Score=49.06  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=21.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            468999999999999999998876

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=93.51  E-value=0.043  Score=49.52  Aligned_cols=22  Identities=45%  Similarity=0.536  Sum_probs=20.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHH
Q 009534          169 GIVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      .+|+|.|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999965

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=93.50  E-value=0.081  Score=51.41  Aligned_cols=26  Identities=27%  Similarity=0.314  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|+|.|..|+||||+++.+....
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999997766

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=93.43  E-value=0.049  Score=52.34  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=23.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.+-++|++|+|||++|+++++..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35678889999999999999999987

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=93.43  E-value=0.043  Score=49.04  Aligned_cols=25  Identities=24%  Similarity=0.351  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>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=93.43  E-value=0.31  Score=49.37  Aligned_cols=26  Identities=31%  Similarity=0.496  Sum_probs=23.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|.++|.+|+||||++..+....
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l  124 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYF  124 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHH
Confidence            47899999999999999999998877

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=93.42  E-value=0.039  Score=49.68  Aligned_cols=25  Identities=36%  Similarity=0.428  Sum_probs=21.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++++|+|+.|+|||||++.+....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3578999999999999999998765

>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=93.41  E-value=0.04  Score=47.98  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=21.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998876

>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=93.40  E-value=0.39  Score=48.56  Aligned_cols=85  Identities=16%  Similarity=0.105  Sum_probs=45.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCH--HHHHHHHHHHhcCCCCC-CCCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQL--GKIQESIAKKIGLCNES-WDSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~--~~l~~~i~~~l~~~~~~-~~~~~~~~~~~~l  243 (532)
                      ..++|.++|.+|+||||++..+.... .. ... .+..++.. .+..  .+-+.......+.+... ....+........
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l-~~-~G~-kVllv~~D-~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~a  171 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY-KK-RGY-KVGLVAAD-VYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKG  171 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH-HH-TTC-CEEEEEEC-CSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HH-cCC-eEEEEecC-ccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHH
Confidence            46899999999999999999998776 22 222 34444432 2222  22233333443332211 0223444443333


Q ss_pred             HHHhc--CCcEEEe
Q 009534          244 FKTMR--NTKFLIS  255 (532)
Q Consensus       244 ~~~L~--~kr~LlV  255 (532)
                      ...+.  +..++||
T Consensus       172 l~~a~~~~~DvvII  185 (433)
T 3kl4_A          172 VDIFVKNKMDIIIV  185 (433)
T ss_dssp             HHHTTTTTCSEEEE
T ss_pred             HHHHHhcCCCEEEE
Confidence            34443  5677887

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=93.38  E-value=0.24  Score=49.08  Aligned_cols=76  Identities=12%  Similarity=0.208  Sum_probs=35.0

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCC--c
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT--W  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~--~  400 (532)
                      .+|+.+.+..  .+..+....+.++.+|+.+.+..  .++.+......          .+.+|+.+.+... ++.++  .
T Consensus       217 ~~l~~i~~~~--~~~~i~~~~f~~~~~L~~i~lp~--~v~~I~~~aF~----------~~~~l~~i~l~~~-i~~i~~~a  281 (379)
T 4h09_A          217 KNLKKITITS--GVTTLGDGAFYGMKALDEIAIPK--NVTSIGSFLLQ----------NCTALKTLNFYAK-VKTVPYLL  281 (379)
T ss_dssp             SSCSEEECCT--TCCEECTTTTTTCSSCCEEEECT--TCCEECTTTTT----------TCTTCCEEEECCC-CSEECTTT
T ss_pred             cccceeeecc--ceeEEccccccCCccceEEEcCC--CccEeCccccc----------eeehhcccccccc-ceeccccc
Confidence            4455555432  34444444455555666665543  24444332222          3455555555432 22222  1


Q ss_pred             hhcCCCcceeeec
Q 009534          401 LILAPNLKLIQMY  413 (532)
Q Consensus       401 l~~l~~L~~L~l~  413 (532)
                      +..+++|+.+.+.
T Consensus       282 F~~c~~L~~i~l~  294 (379)
T 4h09_A          282 CSGCSNLTKVVMD  294 (379)
T ss_dssp             TTTCTTCCEEEEC
T ss_pred             ccccccccccccc
Confidence            3445555555553

>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=93.36  E-value=0.048  Score=49.28  Aligned_cols=26  Identities=31%  Similarity=0.511  Sum_probs=22.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|+|+|+.|+||||+|+.+....
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999997654

>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=93.36  E-value=0.049  Score=48.29  Aligned_cols=25  Identities=32%  Similarity=0.372  Sum_probs=22.7

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>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=93.35  E-value=0.044  Score=48.75  Aligned_cols=24  Identities=29%  Similarity=0.506  Sum_probs=21.6

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|.|.|+.|+|||||++.+..+.
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            468899999999999999998876

>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=93.34  E-value=0.072  Score=54.79  Aligned_cols=46  Identities=20%  Similarity=0.229  Sum_probs=35.0

Q ss_pred             CcccccHHHHHHHHHHhc---cC---------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT---EE---------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~---~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++++.+.+.   ..         -.+-+.++|+.|+|||++|+.+.+..
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~   73 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA   73 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            468999887777666542   21         12347799999999999999999987

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=93.31  E-value=0.048  Score=48.44  Aligned_cols=23  Identities=26%  Similarity=0.530  Sum_probs=21.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998865

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=93.31  E-value=0.083  Score=50.56  Aligned_cols=26  Identities=31%  Similarity=0.241  Sum_probs=23.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999998765

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=93.30  E-value=0.05  Score=47.14  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=21.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=93.28  E-value=0.034  Score=48.96  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=18.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998876

>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=93.27  E-value=0.056  Score=50.94  Aligned_cols=25  Identities=28%  Similarity=0.519  Sum_probs=22.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998874

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=93.26  E-value=0.4  Score=53.37  Aligned_cols=45  Identities=29%  Similarity=0.485  Sum_probs=36.9

Q ss_pred             cccccHHHHHHHHHHhccC---------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLTEE---------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.+..++.+...+...         ....+-|+|..|+|||++|+.+.+..
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999888888777431         23578899999999999999999877

>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=93.22  E-value=0.053  Score=48.71  Aligned_cols=26  Identities=27%  Similarity=0.261  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999998876

>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=93.21  E-value=0.057  Score=48.48  Aligned_cols=26  Identities=19%  Similarity=0.285  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++++|+|+.|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            46789999999999999999998775

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=93.20  E-value=0.33  Score=47.76  Aligned_cols=81  Identities=17%  Similarity=0.139  Sum_probs=51.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCC---CCCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES---WDSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l  243 (532)
                      .-.++.|.|..|+||||||..+.....   ..=..++|++....++..     .++.++...+.   ....+.++....+
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~---~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~  131 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQ---KMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIV  131 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHH
Confidence            457999999999999999999988762   111357888877666654     44555543221   1344556655555


Q ss_pred             HHHhc--CCcEEEe
Q 009534          244 FKTMR--NTKFLIS  255 (532)
Q Consensus       244 ~~~L~--~kr~LlV  255 (532)
                      ...++  .-++++|
T Consensus       132 ~~l~~~~~~dlvVI  145 (356)
T 3hr8_A          132 DELVRSGVVDLIVV  145 (356)
T ss_dssp             HHHHHTSCCSEEEE
T ss_pred             HHHhhhcCCCeEEe
Confidence            55443  2345555

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=93.18  E-value=0.31  Score=48.37  Aligned_cols=76  Identities=13%  Similarity=0.211  Sum_probs=32.9

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      .+|+.+.+..  .++.+....+.++.+|+.+.+..  +++.++.....          .+++|+.+.+.++.++.++.  
T Consensus       240 ~~L~~i~lp~--~v~~I~~~aF~~~~~l~~i~l~~--~i~~i~~~aF~----------~c~~L~~i~l~~~~i~~I~~~a  305 (379)
T 4h09_A          240 KALDEIAIPK--NVTSIGSFLLQNCTALKTLNFYA--KVKTVPYLLCS----------GCSNLTKVVMDNSAIETLEPRV  305 (379)
T ss_dssp             SSCCEEEECT--TCCEECTTTTTTCTTCCEEEECC--CCSEECTTTTT----------TCTTCCEEEECCTTCCEECTTT
T ss_pred             ccceEEEcCC--CccEeCccccceeehhccccccc--cceeccccccc----------cccccccccccccccceehhhh
Confidence            3344444432  24444444444444555554432  33333332222          34555555554444444332  


Q ss_pred             hhcCCCcceeee
Q 009534          401 LILAPNLKLIQM  412 (532)
Q Consensus       401 l~~l~~L~~L~l  412 (532)
                      +..+.+|+.+.|
T Consensus       306 F~~c~~L~~i~l  317 (379)
T 4h09_A          306 FMDCVKLSSVTL  317 (379)
T ss_dssp             TTTCTTCCEEEC
T ss_pred             hcCCCCCCEEEc
Confidence            344455555554

>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=93.18  E-value=0.068  Score=54.28  Aligned_cols=46  Identities=20%  Similarity=0.231  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHhcc--------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE--------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+...+..              ...+-+-++|+.|+||||+|+.+....
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            4689999888888777632              124558899999999999999999877

>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=93.16  E-value=0.059  Score=48.23  Aligned_cols=26  Identities=27%  Similarity=0.489  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|+|.|+.|+||||+|+.+....
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            46799999999999999999998764

>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=93.13  E-value=0.053  Score=49.09  Aligned_cols=26  Identities=19%  Similarity=0.304  Sum_probs=23.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+|.|.|+.|+||||+|+.+....
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999998876

>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=93.11  E-value=0.063  Score=50.28  Aligned_cols=26  Identities=19%  Similarity=0.309  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|+|.|+.|+||||+|+.+....
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56799999999999999999998865

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=93.07  E-value=0.055  Score=48.90  Aligned_cols=25  Identities=16%  Similarity=0.181  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998875

>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=93.05  E-value=0.06  Score=47.03  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++++|.|..|+||||++..+....
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhh
Confidence            35789999999999999999998876

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=93.03  E-value=0.056  Score=50.67  Aligned_cols=26  Identities=27%  Similarity=0.418  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|+|+|+.|+||||+++.+....
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            35689999999999999999999876

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=93.03  E-value=0.064  Score=52.02  Aligned_cols=27  Identities=26%  Similarity=0.279  Sum_probs=24.1

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....+++|.|..|+|||||++.+..-.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            356799999999999999999998876

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=93.02  E-value=0.067  Score=49.82  Aligned_cols=26  Identities=23%  Similarity=0.310  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|+|.|..|.||||+++.+....
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999997754

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=92.98  E-value=0.023  Score=50.50  Aligned_cols=13  Identities=31%  Similarity=0.358  Sum_probs=5.9

Q ss_pred             CCccEEEEeCCcc
Q 009534          383 FSLHKVSIWGSKL  395 (532)
Q Consensus       383 ~~L~~L~l~~c~L  395 (532)
                      ++|++|+|++|.+
T Consensus        65 ~~L~~L~Ls~n~i   77 (185)
T 1io0_A           65 TYVKKFSIVGTRS   77 (185)
T ss_dssp             CSCCEEECTTSCC
T ss_pred             CCcCEEECcCCCC
Confidence            3444444444433

>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=92.98  E-value=0.062  Score=48.19  Aligned_cols=25  Identities=28%  Similarity=0.324  Sum_probs=22.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|.|.|+.|+||||+++.+....
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998765

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=92.98  E-value=0.078  Score=49.66  Aligned_cols=26  Identities=31%  Similarity=0.313  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|.+.|+.|+||||+|+.+....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            46789999999999999999998876

>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=92.98  E-value=0.058  Score=48.80  Aligned_cols=26  Identities=27%  Similarity=0.351  Sum_probs=23.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|+|||||++.+..-.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            35689999999999999999998765

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=92.92  E-value=0.72  Score=46.71  Aligned_cols=87  Identities=17%  Similarity=0.173  Sum_probs=47.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhcCCCCCC-CCCCHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR-DLQLGKIQESIAKKIGLCNESW-DSKSFDEKAQEIF  244 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  244 (532)
                      ..++|.++|.+|+||||++..+.... ..+.. ..+.-|+... .....+.+.......+.+.-.. ...+.........
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l-~~~~G-~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l  176 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFL-REKHK-KKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAAL  176 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHH-HHTSC-CCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HHhcC-CeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHH
Confidence            46899999999999999999998777 22212 2445555432 2233333333333333221100 1234444433333


Q ss_pred             HHh--cCCcEEEe
Q 009534          245 KTM--RNTKFLIS  255 (532)
Q Consensus       245 ~~L--~~kr~LlV  255 (532)
                      +.+  .+-.|+||
T Consensus       177 ~~~~~~~~D~VII  189 (433)
T 2xxa_A          177 KEAKLKFYDVLLV  189 (433)
T ss_dssp             HHHHHTTCSEEEE
T ss_pred             HHHHhCCCCEEEE
Confidence            333  35578888

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=92.88  E-value=0.35  Score=47.58  Aligned_cols=81  Identities=16%  Similarity=0.163  Sum_probs=50.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCC---CCCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES---WDSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l  243 (532)
                      .-.++.|.|.+|+||||||..+.....   ..=..++|++....++..     .+..++...+.   ....+.++....+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~---~~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~  131 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQ---AAGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIA  131 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            457899999999999999999886652   122468899887766653     24445543211   1233455555555


Q ss_pred             HHHhcC--CcEEEe
Q 009534          244 FKTMRN--TKFLIS  255 (532)
Q Consensus       244 ~~~L~~--kr~LlV  255 (532)
                      ....+.  -+.++|
T Consensus       132 ~~l~~~~~~~lIVI  145 (349)
T 2zr9_A          132 DMLVRSGALDIIVI  145 (349)
T ss_dssp             HHHHTTTCCSEEEE
T ss_pred             HHHHhcCCCCEEEE
Confidence            544443  345555

>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=92.87  E-value=0.032  Score=50.61  Aligned_cols=24  Identities=29%  Similarity=0.688  Sum_probs=21.7

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+|.|+.|+||||+++.+....
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            378999999999999999998776

>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=92.87  E-value=0.071  Score=46.06  Aligned_cols=27  Identities=37%  Similarity=0.333  Sum_probs=23.6

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-.+++++|..|.|||||++.+..-.
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            345799999999999999999998765

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=92.86  E-value=0.07  Score=48.72  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=24.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|-|.|++|+||||.|+.+..+.
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999999887

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=92.86  E-value=0.059  Score=49.50  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=22.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|.|.|+.|+||||+|+.+....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999998876

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=92.79  E-value=0.054  Score=49.54  Aligned_cols=26  Identities=35%  Similarity=0.531  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|+|||||++.+....
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998754

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=92.73  E-value=0.13  Score=53.09  Aligned_cols=46  Identities=24%  Similarity=0.232  Sum_probs=34.6

Q ss_pred             CcccccHHHHHHHHHHh---ccC---------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCL---TEE---------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L---~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++++.+..   ...         -.+=+.|+|+.|+||||||+.+....
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~   88 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   88 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            56899987777666554   221         12238899999999999999999876

>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=92.73  E-value=0.069  Score=48.74  Aligned_cols=25  Identities=28%  Similarity=0.313  Sum_probs=22.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|.|.|+.|+||||+|+.+....
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4578999999999999999998876

>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=92.62  E-value=0.23  Score=45.25  Aligned_cols=47  Identities=23%  Similarity=0.304  Sum_probs=32.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCC----CCCeEEEEEeCCCCCHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPN----NFDFVIWEVVSRDLQLG  214 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~v~~~~~~~  214 (532)
                      .-.+++|+|..|+|||||++.+.... ....    .-...+|+.-...+...
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~-~~~~~~g~~~~~~i~~~~~~~~~~~   74 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPE   74 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSCCCHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCEEEEEECCCCCCHH
Confidence            45799999999999999999998754 1110    13467888755544433

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=92.56  E-value=0.071  Score=48.41  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=20.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998776

>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=92.54  E-value=0.079  Score=46.54  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=22.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.+|.|.|+.|+||||+++.+....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688999999999999999998865

>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=92.54  E-value=0.15  Score=50.32  Aligned_cols=37  Identities=24%  Similarity=0.369  Sum_probs=29.3

Q ss_pred             HHHHHHHhc--cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          156 LDRVWRCLT--EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       156 ~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+.+.+.  .++..+|+|+|.+|+||||++..+....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            445555554  3468899999999999999999987766

>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=92.54  E-value=0.077  Score=48.10  Aligned_cols=27  Identities=22%  Similarity=0.352  Sum_probs=23.7

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....+|.|.|+.|+||||+++.+....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            346789999999999999999998765

>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=92.48  E-value=0.085  Score=48.02  Aligned_cols=23  Identities=35%  Similarity=0.375  Sum_probs=20.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999965

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=92.47  E-value=1.2  Score=44.46  Aligned_cols=60  Identities=15%  Similarity=0.129  Sum_probs=32.4

Q ss_pred             ccccccccceeeccccccccccCCCC-cCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecch
Q 009534          437 NLIPFARLERLSLGGLENLRSIYPRA-LPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQE  500 (532)
Q Consensus       437 ~~~~~~~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~  500 (532)
                      .+..+++|+.++|.+  +++.|.... ..|.+|+.+.+..  +++.++..-...+.+|+.+..+.
T Consensus       315 aF~~c~~L~~i~lp~--~v~~I~~~aF~~c~~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~lp~  375 (394)
T 4fs7_A          315 AFESCTSLVSIDLPY--LVEEIGKRSFRGCTSLSNINFPL--SLRKIGANAFQGCINLKKVELPK  375 (394)
T ss_dssp             TTTTCTTCCEECCCT--TCCEECTTTTTTCTTCCEECCCT--TCCEECTTTBTTCTTCCEEEEEG
T ss_pred             hhcCCCCCCEEEeCC--cccEEhHHhccCCCCCCEEEECc--cccEehHHHhhCCCCCCEEEECC
Confidence            455566677776643  355665433 3466677666643  35555544333345555555543

>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=92.45  E-value=0.077  Score=48.21  Aligned_cols=23  Identities=30%  Similarity=0.414  Sum_probs=20.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998766

>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=92.42  E-value=0.075  Score=48.66  Aligned_cols=26  Identities=15%  Similarity=0.215  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|+|||||.+.+....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45789999999999999999998876

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=92.41  E-value=0.066  Score=48.96  Aligned_cols=25  Identities=24%  Similarity=0.178  Sum_probs=22.7

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|.|.|+.|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999999887

>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=92.41  E-value=0.093  Score=48.60  Aligned_cols=35  Identities=23%  Similarity=0.249  Sum_probs=27.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|+.|.|||||.+.+..-.    ....+.+++
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~----~p~~G~I~~   64 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD----KPTEGEVYI   64 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC----CCCceEEEE
Confidence            45689999999999999999997655    233455555

>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=92.33  E-value=0.081  Score=51.06  Aligned_cols=26  Identities=31%  Similarity=0.534  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+++|+|+.|+||||+++.+....
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999998776

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=92.31  E-value=0.11  Score=48.14  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      . .+++|+|+.|.|||||.+.+..-.
T Consensus        24 ~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           24 R-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             S-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             C-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            6 899999999999999999998765

>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=92.26  E-value=0.092  Score=48.86  Aligned_cols=27  Identities=30%  Similarity=0.369  Sum_probs=24.0

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....+|.|.|+.|+||||+|+.+.+..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            356789999999999999999998776

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=92.21  E-value=0.074  Score=47.44  Aligned_cols=23  Identities=43%  Similarity=0.515  Sum_probs=21.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++|+|..|+|||||++.+....
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            68999999999999999998876

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=92.21  E-value=1.1  Score=46.14  Aligned_cols=26  Identities=23%  Similarity=0.452  Sum_probs=22.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|.|+|.+|+||||++..+....
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999998776

>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=92.19  E-value=0.079  Score=50.56  Aligned_cols=23  Identities=26%  Similarity=0.629  Sum_probs=21.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQIN  189 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~  189 (532)
                      ...+|+|.|+.|+||||+|+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            46789999999999999999997

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=92.17  E-value=0.11  Score=55.50  Aligned_cols=44  Identities=20%  Similarity=0.299  Sum_probs=37.4

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|.+..++.+...+..+  ..+.|+|+.|+||||+|+.+....
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccC
Confidence            35799988888887777765  588999999999999999999876

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=92.13  E-value=0.14  Score=49.59  Aligned_cols=40  Identities=20%  Similarity=0.326  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHhccC---CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          153 QSTLDRVWRCLTEE---PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       153 ~~~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...++.+.+++...   ...-+-++|..|+|||+||+++++..
T Consensus       134 ~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          134 MEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            33444555566532   24678899999999999999999977

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=92.12  E-value=0.1  Score=47.99  Aligned_cols=35  Identities=23%  Similarity=0.211  Sum_probs=27.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|+.|.|||||.+.+..-.    ....+.+++
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~----~p~~G~i~~   63 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLD----APTEGKVFL   63 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEE
Confidence            34689999999999999999997655    233455555

>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=92.02  E-value=0.091  Score=47.20  Aligned_cols=23  Identities=22%  Similarity=0.446  Sum_probs=21.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|+|.|+.|+||||+|+.+....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            89999999999999999998876

>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=92.01  E-value=0.11  Score=49.41  Aligned_cols=35  Identities=26%  Similarity=0.293  Sum_probs=27.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|+.|.|||||.+.+..-.    ....+.+++
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~----~p~~G~I~~   67 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGIL----KPSSGRILF   67 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC----CCCCeEEEE
Confidence            34689999999999999999997755    334555555

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=92.01  E-value=0.11  Score=49.03  Aligned_cols=35  Identities=26%  Similarity=0.267  Sum_probs=27.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|+.|.|||||.+.+..-.    ....+.+++
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~----~p~~G~i~~   65 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE----KPSEGAIIV   65 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCcEEEE
Confidence            45689999999999999999997755    233455555

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=91.89  E-value=0.081  Score=49.50  Aligned_cols=25  Identities=36%  Similarity=0.328  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.+|.|+|+.|+||||+++.+....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998876

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=91.88  E-value=0.59  Score=46.06  Aligned_cols=45  Identities=24%  Similarity=0.147  Sum_probs=34.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLG  214 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~  214 (532)
                      .-+++-|.|.+|+||||||..+.....   ..-..++|++....++..
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~---~~g~~vlyid~E~s~~~~  106 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI  106 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEeCCCCccHH
Confidence            457899999999999999999887652   122468899987776643

>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=91.85  E-value=0.18  Score=49.23  Aligned_cols=27  Identities=30%  Similarity=0.475  Sum_probs=24.0

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....+++|+|+.|+||||+++.+....
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999999998766

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=91.78  E-value=0.11  Score=50.86  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=22.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+|.|+.|+||||+|+.+....
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999998876

>4gt6_A Cell surface protein; leucine rich repeats, putative protein binding, extracellula protein, structural genomics; HET: MSE; 1.80A {Faecalibacterium prausnitzii a2-165}

Probab=91.77  E-value=0.39  Score=47.99  Aligned_cols=101  Identities=14%  Similarity=0.211  Sum_probs=64.4

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCC--c
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT--W  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~--~  400 (532)
                      ++|+.+.+..  .+..+....+.++++|+.+.+..  .++.++.....          .+.+|+.+.|... ++.+.  .
T Consensus       265 ~~L~~i~lp~--~~~~I~~~aF~~c~~L~~i~l~~--~i~~I~~~aF~----------~c~~L~~i~lp~~-v~~I~~~a  329 (394)
T 4gt6_A          265 AYLASVKMPD--SVVSIGTGAFMNCPALQDIEFSS--RITELPESVFA----------GCISLKSIDIPEG-ITQILDDA  329 (394)
T ss_dssp             SSCCEEECCT--TCCEECTTTTTTCTTCCEEECCT--TCCEECTTTTT----------TCTTCCEEECCTT-CCEECTTT
T ss_pred             ccccEEeccc--ccceecCcccccccccccccCCC--cccccCceeec----------CCCCcCEEEeCCc-ccEehHhH
Confidence            4455555542  24444444556666677666642  45555544433          6789999998764 44443  2


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccc
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGL  452 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  452 (532)
                      +..+.+|+.+.|-.  +++.|..            ..+..+++|+.+++.+.
T Consensus       330 F~~C~~L~~i~ip~--sv~~I~~------------~aF~~C~~L~~i~~~~~  367 (394)
T 4gt6_A          330 FAGCEQLERIAIPS--SVTKIPE------------SAFSNCTALNNIEYSGS  367 (394)
T ss_dssp             TTTCTTCCEEEECT--TCCBCCG------------GGGTTCTTCCEEEESSC
T ss_pred             hhCCCCCCEEEECc--ccCEEhH------------hHhhCCCCCCEEEECCc
Confidence            67789999999843  4666654            36778899999988763

>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=91.76  E-value=0.11  Score=47.38  Aligned_cols=26  Identities=38%  Similarity=0.589  Sum_probs=22.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999997755

>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=91.75  E-value=0.12  Score=47.94  Aligned_cols=26  Identities=42%  Similarity=0.492  Sum_probs=22.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999997755

>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=91.74  E-value=0.11  Score=56.90  Aligned_cols=46  Identities=24%  Similarity=0.365  Sum_probs=35.6

Q ss_pred             CcccccHHHHHHHHHHhc----c---------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT----E---------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|.++.+++|.+.+.    .         ..++=|-++|+.|+|||+||+++.+..
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el  262 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  262 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            346788877777776642    2         135668899999999999999999877

>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=91.73  E-value=0.11  Score=50.27  Aligned_cols=26  Identities=23%  Similarity=0.235  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+++|.|..|+|||||++.+....
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999998865

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=91.72  E-value=0.064  Score=49.43  Aligned_cols=25  Identities=28%  Similarity=0.240  Sum_probs=16.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHH-Hhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQIN-NSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~-~~~  192 (532)
                      -.+++|+|+.|+||||+++.+. ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4689999999999999999998 544

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=91.71  E-value=0.2  Score=44.85  Aligned_cols=83  Identities=14%  Similarity=0.113  Sum_probs=45.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCC---CCCCCHHHHHHHHHHH
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES---WDSKSFDEKAQEIFKT  246 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~  246 (532)
                      .|+|-|..|+||||.++.+.+.. +.  .-..+....-.......+..+.++..-......   ....+..+....+...
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L-~~--~g~~v~~treP~~t~~~~~ir~~l~~~~~~~~~~~ll~~a~r~~~~~~I~~~   78 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYL-EK--RGKKVILKREPGGTETGEKIRKILLEEEVTPKAELFLFLASRNLLVTEIKQY   78 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH-HH--TTCCEEEEESSCSSHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH-HH--CCCcEEEEECCCCCcHHHHHHHHhhcccCChHHHHHHHHHHHHHHHHHHHHH
Confidence            47899999999999999999888 32  222344444333334444444444322110000   0001122344556677


Q ss_pred             hcCCcEEEe
Q 009534          247 MRNTKFLIS  255 (532)
Q Consensus       247 L~~kr~LlV  255 (532)
                      |...+.+|.
T Consensus        79 L~~g~~Vi~   87 (197)
T 3hjn_A           79 LSEGYAVLL   87 (197)
T ss_dssp             HTTTCEEEE
T ss_pred             HHCCCeEEe
Confidence            777776665

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=91.70  E-value=0.11  Score=50.05  Aligned_cols=26  Identities=27%  Similarity=0.475  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+++|+|..|+||||+++.+....
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999998876

>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=91.68  E-value=0.13  Score=47.46  Aligned_cols=26  Identities=31%  Similarity=0.449  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

>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=91.67  E-value=0.13  Score=48.09  Aligned_cols=35  Identities=23%  Similarity=0.297  Sum_probs=27.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||.+.+..-.    ....+.+++
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~----~p~~G~I~i   68 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY----IPENGQVLI   68 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCcEEEE
Confidence            34689999999999999999997765    233566655

>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=91.67  E-value=0.11  Score=48.06  Aligned_cols=25  Identities=20%  Similarity=0.389  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>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=91.66  E-value=0.11  Score=45.50  Aligned_cols=25  Identities=28%  Similarity=0.527  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++.|.|..|+||||+++.+....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999998875

>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=91.63  E-value=0.13  Score=48.56  Aligned_cols=35  Identities=26%  Similarity=0.139  Sum_probs=27.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|+.|.|||||.+.+..-.    ....+.+++
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~----~p~~G~I~~   83 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE----DFDEGEIII   83 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC----CCCCcEEEE
Confidence            45789999999999999999997755    233455555

>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=91.61  E-value=0.13  Score=48.68  Aligned_cols=26  Identities=31%  Similarity=0.512  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45789999999999999999997755

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=91.57  E-value=0.11  Score=47.63  Aligned_cols=23  Identities=22%  Similarity=0.427  Sum_probs=21.1

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998876

>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=91.55  E-value=0.13  Score=48.29  Aligned_cols=35  Identities=20%  Similarity=0.246  Sum_probs=26.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|+.|.|||||.+.+..-.    ....+.+++
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~----~p~~G~i~~   66 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL----KADEGRVYF   66 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEE
Confidence            34689999999999999999997765    233455555

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=91.54  E-value=0.069  Score=46.78  Aligned_cols=24  Identities=33%  Similarity=0.476  Sum_probs=21.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|+|..|.|||||++.+..-.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999997776

>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=91.50  E-value=0.13  Score=48.20  Aligned_cols=35  Identities=31%  Similarity=0.321  Sum_probs=27.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|+.|.|||||.+.+..-.    ....+.+++
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~----~p~~G~I~~   74 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI----KPSSGIVTV   74 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC----CCCceEEEE
Confidence            45689999999999999999997765    233455555

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=91.49  E-value=0.16  Score=45.70  Aligned_cols=37  Identities=14%  Similarity=0.091  Sum_probs=27.0

Q ss_pred             HHHHHHHhcc-CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          156 LDRVWRCLTE-EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       156 ~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+..++.. ++.+.+-|+|++|+||||+|.++.+..
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444444433 133468999999999999999998876

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=91.49  E-value=0.1  Score=47.45  Aligned_cols=24  Identities=29%  Similarity=0.315  Sum_probs=21.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..|.|.|+.|+||||+|+.+....
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999998876

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=91.46  E-value=0.13  Score=48.62  Aligned_cols=35  Identities=23%  Similarity=0.325  Sum_probs=27.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||.+.+..-.    ....+.+++
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~----~p~~G~I~~   78 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY----QPTGGKVLL   78 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC----CCCCCEEEE
Confidence            45689999999999999999997765    233455555

>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=91.45  E-value=0.11  Score=47.22  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=20.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=91.44  E-value=0.2  Score=54.97  Aligned_cols=60  Identities=25%  Similarity=0.375  Sum_probs=43.2

Q ss_pred             CcccccHHHHHHHHHHhccC---------CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          147 PTVVGLQSTLDRVWRCLTEE---------PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      ..++|.+..++.+.+.+...         ....+-++|+.|+|||++|+.+.+...   ..-...+.+.++.
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~---~~~~~~i~i~~s~  559 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIF---GDEESMIRIDMSE  559 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHH---SCTTCEEEEEGGG
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc---CCCcceEEEechh
Confidence            45799999998888887531         123688999999999999999998863   2223344555443

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=91.43  E-value=0.4  Score=46.57  Aligned_cols=58  Identities=22%  Similarity=0.332  Sum_probs=41.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCC----CCCeEEEEEeCCCCCHHHHHHHHHHHhcC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPN----NFDFVIWEVVSRDLQLGKIQESIAKKIGL  226 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~v~~~~~~~~l~~~i~~~l~~  226 (532)
                      .-.++.|+|..|+||||+|..+.... ....    .-..++|++....++...+.+. +..++.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~-~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~-~~~~g~  167 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNV-QLPPEKGGLSGKAVYIDTEGTFRWERIENM-AKALGL  167 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTCCSCEEEEEESSSCCCHHHHHHH-HHHTTC
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHHHH-HHHhCC
Confidence            45689999999999999999988765 1111    0247899998887777766543 445543

>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=91.43  E-value=0.12  Score=47.64  Aligned_cols=25  Identities=28%  Similarity=0.299  Sum_probs=22.7

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|.|.|+.|+||||+|+.+....
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999998887

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=91.41  E-value=0.13  Score=48.17  Aligned_cols=26  Identities=35%  Similarity=0.422  Sum_probs=23.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...++.+.|.||+||||++..+....
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            46788899999999999999998776

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.40  E-value=0.13  Score=47.72  Aligned_cols=25  Identities=20%  Similarity=0.371  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|.|.|..|+||||+++.+....
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999886

>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=91.40  E-value=0.13  Score=53.99  Aligned_cols=45  Identities=33%  Similarity=0.402  Sum_probs=35.5

Q ss_pred             cccccHHHHHHHHHHhcc------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          148 TVVGLQSTLDRVWRCLTE------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       148 ~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++|.++-++.+.+.+.-      .....+.++|+.|+||||+|+.+....
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            468888777777655421      245689999999999999999999876

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=91.39  E-value=0.96  Score=45.60  Aligned_cols=84  Identities=13%  Similarity=0.144  Sum_probs=46.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHH--HHHHHHHhcCCCCCC-CCCCHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKI--QESIAKKIGLCNESW-DSKSFDEKAQEIF  244 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l--~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  244 (532)
                      ..++.|+|.+|+||||++..+.... ... . ..+..+.. ..+.....  +.......+.+.-.. ...+..+......
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l-~~~-g-~~Vllvd~-D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~l  173 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYY-KGK-G-RRPLLVAA-DTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVE  173 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH-HTT-T-CCEEEEEC-CSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-HHc-C-CeEEEeec-cccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHHH
Confidence            5789999999999999999998877 322 1 23444543 33333222  333444444321100 1234444433333


Q ss_pred             HHh--cCCcEEEe
Q 009534          245 KTM--RNTKFLIS  255 (532)
Q Consensus       245 ~~L--~~kr~LlV  255 (532)
                      +.+  .+-.++||
T Consensus       174 ~~~~~~~~DvVII  186 (425)
T 2ffh_A          174 EKARLEARDLILV  186 (425)
T ss_dssp             HHHHHTTCSEEEE
T ss_pred             HHHHHCCCCEEEE
Confidence            444  45567888

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=91.34  E-value=0.4  Score=47.87  Aligned_cols=120  Identities=18%  Similarity=0.133  Sum_probs=74.3

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCC--c
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVT--W  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~--~  400 (532)
                      .+|+.+.+..  .+..+....+..+..|+.+.....    .++....          ..+.+|+.+.+.+. ++.+.  .
T Consensus       253 ~~l~~~~~~~--~~~~i~~~~F~~~~~l~~~~~~~~----~i~~~~F----------~~~~~L~~i~l~~~-i~~I~~~a  315 (394)
T 4fs7_A          253 TDLESISIQN--NKLRIGGSLFYNCSGLKKVIYGSV----IVPEKTF----------YGCSSLTEVKLLDS-VKFIGEEA  315 (394)
T ss_dssp             SSCCEEEECC--TTCEECSCTTTTCTTCCEEEECSS----EECTTTT----------TTCTTCCEEEECTT-CCEECTTT
T ss_pred             ccceeEEcCC--CcceeeccccccccccceeccCce----eeccccc----------cccccccccccccc-cceechhh
Confidence            5577776654  244555555556666666655431    1222222          25678888888664 44443  2


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCC-cCCCCccEEeecC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRA-LPFPHLKELHVTL  475 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~  475 (532)
                      +..+.+|+.+.|.  ..++.|..            ..+..+++|+.+.+..  +++.+.... ..|++|+.+.+..
T Consensus       316 F~~c~~L~~i~lp--~~v~~I~~------------~aF~~c~~L~~i~lp~--~l~~I~~~aF~~C~~L~~i~lp~  375 (394)
T 4fs7_A          316 FESCTSLVSIDLP--YLVEEIGK------------RSFRGCTSLSNINFPL--SLRKIGANAFQGCINLKKVELPK  375 (394)
T ss_dssp             TTTCTTCCEECCC--TTCCEECT------------TTTTTCTTCCEECCCT--TCCEECTTTBTTCTTCCEEEEEG
T ss_pred             hcCCCCCCEEEeC--CcccEEhH------------HhccCCCCCCEEEECc--cccEehHHHhhCCCCCCEEEECC
Confidence            5678888888884  24666644            3677788888888864  477776644 3578888888753

>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=91.33  E-value=0.2  Score=51.45  Aligned_cols=42  Identities=19%  Similarity=0.309  Sum_probs=29.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQ  212 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~  212 (532)
                      ...+++|+|..|+||||+++.+.... ..   -.+.+++.-...+.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll-~~---~~G~V~l~g~D~~r  333 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF-EQ---QGKSVMLAAGDTFR  333 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH-HH---TTCCEEEECCCTTC
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh-hh---cCCeEEEecCcccc
Confidence            46799999999999999999998766 21   23445554334443

>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=91.31  E-value=0.65  Score=44.47  Aligned_cols=85  Identities=15%  Similarity=0.068  Sum_probs=47.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhcCCCCC-CCCCCHHHHHHHHHH
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR-DLQLGKIQESIAKKIGLCNES-WDSKSFDEKAQEIFK  245 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~~~~l~~  245 (532)
                      ..++.++|.+|+||||++..+.... ..  .=..+.++.... ......-++......+.+.-. ....+..+......+
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~-~~--~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~  174 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFY-KK--KGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVE  174 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHH-HH--TTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-HH--CCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHH
Confidence            5789999999999999999988776 21  112455565432 222223233344444432110 022344555444444


Q ss_pred             Hh--cCCcEEEe
Q 009534          246 TM--RNTKFLIS  255 (532)
Q Consensus       246 ~L--~~kr~LlV  255 (532)
                      .+  .+-.|+||
T Consensus       175 ~~~~~~~D~ViI  186 (297)
T 1j8m_F          175 KFLSEKMEIIIV  186 (297)
T ss_dssp             HHHHTTCSEEEE
T ss_pred             HHHhCCCCEEEE
Confidence            44  45567777

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=91.27  E-value=0.082  Score=47.94  Aligned_cols=24  Identities=33%  Similarity=0.180  Sum_probs=21.2

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -.+++|+|..|.|||||++.+..-
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999998754

>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=91.23  E-value=0.12  Score=45.93  Aligned_cols=25  Identities=36%  Similarity=0.448  Sum_probs=22.2

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...++|+|..|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4678999999999999999998765

>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=91.23  E-value=0.14  Score=47.72  Aligned_cols=26  Identities=27%  Similarity=0.589  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45789999999999999999997654

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=91.22  E-value=0.27  Score=44.66  Aligned_cols=52  Identities=17%  Similarity=0.210  Sum_probs=32.7

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAK  222 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~  222 (532)
                      ..|.|.|..|+||||+++.+.... .. ..+..+....-.....+.+..+.++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l-~~-~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL-EQ-LGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH-HH-TTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH-HH-cCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            578999999999999999999887 32 33433333332222233444444443

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=91.22  E-value=0.15  Score=48.20  Aligned_cols=26  Identities=27%  Similarity=0.286  Sum_probs=22.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45689999999999999999997754

>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=91.13  E-value=0.12  Score=48.32  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=22.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999874

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=91.09  E-value=0.74  Score=45.49  Aligned_cols=74  Identities=18%  Similarity=0.126  Sum_probs=47.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCC---CCCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNES---WDSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l  243 (532)
                      .-.++-|.|.+|+||||+|..+.....   ..-..++|++....++..     .+..++.+.+.   ....+.++....+
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~---~~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l  144 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQ---KAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  144 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHH---HCCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHH
Confidence            356888899999999999999877652   122478999988766654     24445443211   1234556666666


Q ss_pred             HHHhc
Q 009534          244 FKTMR  248 (532)
Q Consensus       244 ~~~L~  248 (532)
                      ....+
T Consensus       145 ~~l~~  149 (366)
T 1xp8_A          145 ELLVR  149 (366)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            65554

>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=91.09  E-value=0.12  Score=47.99  Aligned_cols=26  Identities=27%  Similarity=0.468  Sum_probs=22.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            35689999999999999999997654

>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=91.08  E-value=0.28  Score=45.27  Aligned_cols=37  Identities=19%  Similarity=0.398  Sum_probs=28.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      ...|.|.|+.|+||||+++.+.... . ..++..+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l-~-~~~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL-Q-QNGIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH-H-HTTCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH-H-hcCCCeeeeec
Confidence            4689999999999999999999887 3 23455344443

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=91.06  E-value=0.15  Score=43.34  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=21.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-|.++|..|+|||||...+.+..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998764

>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=91.04  E-value=0.23  Score=45.66  Aligned_cols=26  Identities=23%  Similarity=0.446  Sum_probs=23.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-..|.|.|+.|+||||+++.+....
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35789999999999999999999988

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=91.03  E-value=0.16  Score=48.40  Aligned_cols=35  Identities=31%  Similarity=0.247  Sum_probs=26.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||.+.+..-.    ....+.+++
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~----~p~~G~I~~   80 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE----PATSGTVNL   80 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC----CCCCeEEEE
Confidence            45689999999999999999997765    223455554

>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=90.98  E-value=0.15  Score=49.29  Aligned_cols=26  Identities=31%  Similarity=0.510  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...++.|+|.+|+||||++..+....
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            46799999999999999999998776

>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=90.93  E-value=0.13  Score=48.69  Aligned_cols=25  Identities=28%  Similarity=0.493  Sum_probs=22.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999885

>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=90.92  E-value=0.13  Score=45.89  Aligned_cols=25  Identities=36%  Similarity=0.448  Sum_probs=21.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...++|+|..|+|||||.+.+....
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999998764

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=90.88  E-value=0.15  Score=49.49  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=22.3

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|.|+|+.|+||||+|+.+....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999998876

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=90.88  E-value=0.56  Score=45.95  Aligned_cols=57  Identities=16%  Similarity=0.237  Sum_probs=41.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCC----CCCeEEEEEeCCCCCHHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPN----NFDFVIWEVVSRDLQLGKIQESIAKKIG  225 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~v~~~~~~~~l~~~i~~~l~  225 (532)
                      .-.++.|.|..|+||||+|..+.... ....    .-..++|++....++...+... +..++
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~-~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~-~~~~g  181 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTA-QLPGAGGYPGGKIIFIDTENTFRPDRLRDI-ADRFN  181 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHT-TSCBTTTBCCCEEEEEESSSCCCHHHHHHH-HHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hcccccCCCCCeEEEEECCCCCCHHHHHHH-HHHcC
Confidence            45789999999999999999988764 1111    2257899998887777765543 44444

>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=90.81  E-value=0.14  Score=44.09  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHh
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      ..|+|+|.+|+|||||.+.+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999999764

>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=90.80  E-value=0.17  Score=48.76  Aligned_cols=25  Identities=24%  Similarity=0.341  Sum_probs=22.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.|.|+.|+||||||..+....
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            4689999999999999999998765

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=90.77  E-value=0.15  Score=50.25  Aligned_cols=26  Identities=27%  Similarity=0.475  Sum_probs=23.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+++|+|..|+||||+++.+....
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            35799999999999999999998876

>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=90.67  E-value=0.15  Score=46.04  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=21.2

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +|.|.|++|+||+|.|+.+..+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57789999999999999999887

>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=90.64  E-value=0.41  Score=43.44  Aligned_cols=25  Identities=28%  Similarity=0.256  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -..|.|.|+.|+||||+++.+.+..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999887

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=90.64  E-value=0.16  Score=49.30  Aligned_cols=26  Identities=38%  Similarity=0.616  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+++|+|.+|+||||++..+....
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999988776

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=90.57  E-value=9.6  Score=37.19  Aligned_cols=26  Identities=31%  Similarity=0.410  Sum_probs=22.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +...++++|..|+|||||...+....
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~~  191 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTAK  191 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            46789999999999999999987653

>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=90.53  E-value=0.14  Score=43.53  Aligned_cols=23  Identities=35%  Similarity=0.548  Sum_probs=20.4

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|.+|+|||||...+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999998764

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=90.52  E-value=0.17  Score=49.33  Aligned_cols=26  Identities=27%  Similarity=0.452  Sum_probs=23.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.|+|+.|+||||||..+....
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC
Confidence            34689999999999999999998766

>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=90.48  E-value=0.51  Score=42.52  Aligned_cols=24  Identities=25%  Similarity=0.530  Sum_probs=22.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-|+|-|..|+||||+++.+.+..
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L   26 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL   26 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            468899999999999999999988

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=90.43  E-value=0.077  Score=50.87  Aligned_cols=26  Identities=23%  Similarity=0.446  Sum_probs=20.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+|+|.|..|+||||+|+.+....
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998764

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=90.36  E-value=0.18  Score=44.31  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=21.2

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      ...|+++|..|+|||||.+.+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999999874

>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=90.36  E-value=0.17  Score=48.60  Aligned_cols=24  Identities=25%  Similarity=0.246  Sum_probs=21.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|.|+.|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999998753

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=90.32  E-value=0.56  Score=45.36  Aligned_cols=53  Identities=11%  Similarity=0.086  Sum_probs=38.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKI  224 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l  224 (532)
                      .-.++.|.|.+|+||||+|..+..... .++  ..++|++..  .+..++...+....
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a-~~g--~~vl~~slE--~s~~~l~~R~~~~~  119 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMS-DND--DVVNLHSLE--MGKKENIKRLIVTA  119 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHH-TTT--CEEEEEESS--SCHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH-HcC--CeEEEEECC--CCHHHHHHHHHHHH
Confidence            356888999999999999999987663 222  678888755  46667777766543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=90.32  E-value=0.15  Score=48.00  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45689999999999999999998765

>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=90.31  E-value=0.11  Score=47.89  Aligned_cols=25  Identities=32%  Similarity=0.243  Sum_probs=22.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      .-.+|+|.|..|+||||+++.+...
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            4579999999999999999988664

>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=90.29  E-value=0.15  Score=47.62  Aligned_cols=26  Identities=35%  Similarity=0.484  Sum_probs=22.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34689999999999999999998765

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=90.27  E-value=0.34  Score=49.64  Aligned_cols=40  Identities=25%  Similarity=0.367  Sum_probs=30.0

Q ss_pred             cHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          152 LQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       152 r~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.++.+.+.+..++ +.+.|.|.+|+||||++..+....
T Consensus        30 Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           30 QKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             HHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3444555555555543 389999999999999999998877

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=90.27  E-value=0.16  Score=46.37  Aligned_cols=48  Identities=21%  Similarity=0.153  Sum_probs=31.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      .-.++.|.|..|+|||||++.+.....   ..=..+.|+....  ....+...
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~---~~~~~v~~~~~~~--~~~~~~~~   69 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGL---RDGDPCIYVTTEE--SRDSIIRQ   69 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHH---HHTCCEEEEESSS--CHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHH---HCCCeEEEEEccc--CHHHHHHH
Confidence            346899999999999999999986652   1112456665433  34444443

>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=90.22  E-value=0.15  Score=44.88  Aligned_cols=22  Identities=41%  Similarity=0.534  Sum_probs=19.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHh
Q 009534          170 IVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -|.|+|.+|+|||||.+.+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998763

>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=90.22  E-value=0.16  Score=43.38  Aligned_cols=25  Identities=20%  Similarity=0.361  Sum_probs=21.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .--|.|+|.+|+|||||...+.+..
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            3457899999999999999998764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=90.18  E-value=0.18  Score=46.47  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+|+|.|+.|+||||+++.+....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999998876

>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=90.17  E-value=0.16  Score=44.65  Aligned_cols=24  Identities=33%  Similarity=0.470  Sum_probs=21.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      --|.++|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998764

>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=90.17  E-value=0.19  Score=48.24  Aligned_cols=25  Identities=28%  Similarity=0.367  Sum_probs=22.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+++|+|.+|+||||++..+....
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~  122 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYY  122 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999998776

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=90.02  E-value=0.16  Score=47.57  Aligned_cols=26  Identities=31%  Similarity=0.455  Sum_probs=22.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=90.01  E-value=0.58  Score=45.31  Aligned_cols=58  Identities=17%  Similarity=0.313  Sum_probs=41.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCC------------CCC--CeEEEEEeCCCCCHHHHHHHHHHHhcC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTP------------NNF--DFVIWEVVSRDLQLGKIQESIAKKIGL  226 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~------------~~F--~~~~wv~v~~~~~~~~l~~~i~~~l~~  226 (532)
                      .-.++-|.|..|+|||++|..+.... ...            +..  ..++|++....++...+.+. +..++.
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~-~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~-~~~~g~  168 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNL-QNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQM-AEHAGI  168 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT-TCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHH-HHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-hccccccccccccccCCCCCceEEEEECCCCCCHHHHHHH-HHHcCC
Confidence            45789999999999999999987653 111            111  47899998888777776644 444543

>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=89.99  E-value=0.29  Score=47.15  Aligned_cols=41  Identities=10%  Similarity=0.046  Sum_probs=32.5

Q ss_pred             ccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHh
Q 009534          151 GLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       151 Gr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      |-++.++.+.+.+..++.+..-++|+.|+||||+|+.+.+.
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~   41 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEY   41 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            34556777788887777788999999999999999999775

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=89.93  E-value=0.69  Score=46.33  Aligned_cols=59  Identities=19%  Similarity=0.214  Sum_probs=38.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCC---CCCCCeEEEEEeCCCCCHHHHHHHHHHHhcC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHT---PNNFDFVIWEVVSRDLQLGKIQESIAKKIGL  226 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~---~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~  226 (532)
                      .-.++.|+|..|+|||||+..+.-.....   ...-..++|++....++...+. .+++.++.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl  238 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGL  238 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTC
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCC
Confidence            45799999999999999999775333110   1123568899877666655443 35555543

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=89.92  E-value=0.49  Score=46.55  Aligned_cols=48  Identities=23%  Similarity=0.338  Sum_probs=33.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCC----CeEEEEEeCCCCCHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF----DFVIWEVVSRDLQLGK  215 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F----~~~~wv~v~~~~~~~~  215 (532)
                      .-.++.|+|..|+|||||+..+.... ......    ..++|++....+....
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~-~~~~~~Gg~~G~vi~i~~e~~~~~~~  181 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPER  181 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh-ccchhcCCCCCeEEEEeCCCCCCHHH
Confidence            56899999999999999999998765 111111    2458998765544333

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=89.87  E-value=0.2  Score=47.14  Aligned_cols=27  Identities=22%  Similarity=0.436  Sum_probs=23.3

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-.+++|+|+.|.||||+.+.+....
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            456799999999999999999987654

>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=89.87  E-value=0.19  Score=48.48  Aligned_cols=26  Identities=31%  Similarity=0.517  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||++.+..-.
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCC
Confidence            45789999999999999999997654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=89.87  E-value=0.17  Score=47.82  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=21.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|+|..|+|||||.+.++...
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            58999999999999999998865

>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=89.83  E-value=0.18  Score=48.46  Aligned_cols=27  Identities=15%  Similarity=0.216  Sum_probs=23.5

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-.+++|+|+.|.|||||++.+..-.
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            356789999999999999999998754

>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=89.82  E-value=0.2  Score=44.89  Aligned_cols=38  Identities=21%  Similarity=0.128  Sum_probs=21.9

Q ss_pred             HHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          155 TLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       155 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.+.+.....+.--|.|+|..|+|||||...+.+..
T Consensus        17 ~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           17 RGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             -------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             chhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            33344444444455678999999999999999988654

>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=89.77  E-value=0.33  Score=53.24  Aligned_cols=46  Identities=26%  Similarity=0.427  Sum_probs=37.2

Q ss_pred             CcccccHHHHHHHHHHhccC---------CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEE---------PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+.+.+...         ....+-++|+.|+|||++|+.+.+..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            45789999888888876421         23468899999999999999999876

>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=89.77  E-value=0.19  Score=42.85  Aligned_cols=24  Identities=38%  Similarity=0.403  Sum_probs=21.0

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-|.++|..|+|||||...+.+..
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            458899999999999999998764

>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=89.76  E-value=0.22  Score=47.84  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.|.|+.|+||||||..+....
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC
Confidence            5789999999999999999998876

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=89.73  E-value=0.32  Score=42.65  Aligned_cols=35  Identities=34%  Similarity=0.514  Sum_probs=26.9

Q ss_pred             HHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          157 DRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       157 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.+ +...+..-|.|+|..|+|||||...+.+..
T Consensus         6 ~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~~   40 (187)
T 1zj6_A            6 TRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMNE   40 (187)
T ss_dssp             HHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             HHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcCC
Confidence            34555 444566788999999999999999998543

>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=89.65  E-value=0.34  Score=48.18  Aligned_cols=27  Identities=22%  Similarity=0.039  Sum_probs=23.9

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....+++|+|+.|+|||||++.+....
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            356799999999999999999999765

>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=89.55  E-value=0.46  Score=47.91  Aligned_cols=29  Identities=31%  Similarity=0.395  Sum_probs=25.2

Q ss_pred             ccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          164 TEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       164 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....-.+++|+|+.|.||||+.+.+....
T Consensus       163 ~~~~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          163 IKRPHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             HTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHhcCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            34556799999999999999999998876

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=89.55  E-value=0.22  Score=48.05  Aligned_cols=24  Identities=33%  Similarity=0.570  Sum_probs=21.0

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -+++-|+|++|+|||+||.++...
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            456789999999999999999775

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=89.49  E-value=0.23  Score=43.81  Aligned_cols=26  Identities=27%  Similarity=0.232  Sum_probs=22.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....|.|+|..|+|||||...+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999998764

>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=89.48  E-value=0.17  Score=43.60  Aligned_cols=25  Identities=36%  Similarity=0.356  Sum_probs=20.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .--|.|+|..|+|||||.+.+....
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            3468999999999999999987654

>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=89.48  E-value=0.13  Score=48.38  Aligned_cols=26  Identities=15%  Similarity=0.267  Sum_probs=23.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +...|.|.|..|+||||+|+.+.+..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            46799999999999999999887765

>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=89.46  E-value=0.2  Score=42.69  Aligned_cols=23  Identities=35%  Similarity=0.554  Sum_probs=20.4

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|..|+|||||.+.+.+..
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            57899999999999999998754

>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=89.42  E-value=0.36  Score=49.91  Aligned_cols=44  Identities=9%  Similarity=-0.031  Sum_probs=32.5

Q ss_pred             ccccHHHHHHHHHHh--ccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          149 VVGLQSTLDRVWRCL--TEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       149 ~vGr~~~~~~l~~~L--~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...+.+-.+.+.+..  ...+..+|.+.|+.|+||||+|+.+....
T Consensus       374 ~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          374 WFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             cccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            345554444555544  22356789999999999999999999998

>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=89.40  E-value=0.19  Score=50.88  Aligned_cols=27  Identities=26%  Similarity=0.286  Sum_probs=23.8

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....+|.|+|+.|+||||+|+.+..+.
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            357899999999999999999998765

>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=89.29  E-value=0.21  Score=42.64  Aligned_cols=23  Identities=22%  Similarity=0.336  Sum_probs=20.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|..|+|||||...+.+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999988765

>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=89.28  E-value=0.22  Score=43.91  Aligned_cols=25  Identities=36%  Similarity=0.274  Sum_probs=20.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .--|.|+|..|+|||||.+.+.+..
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhc
Confidence            3458899999999999998877654

>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=89.25  E-value=0.21  Score=42.76  Aligned_cols=24  Identities=38%  Similarity=0.351  Sum_probs=21.0

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      --|.|+|..|+|||||...+.+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            458899999999999999998764

>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=89.25  E-value=0.22  Score=42.68  Aligned_cols=24  Identities=29%  Similarity=0.351  Sum_probs=21.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      --|.|+|..|+|||||.+.+.+..
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            358899999999999999998765

>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=89.21  E-value=0.23  Score=42.29  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.7

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||...+....
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999997654

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=89.20  E-value=0.87  Score=43.82  Aligned_cols=54  Identities=11%  Similarity=0.106  Sum_probs=38.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCC
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCN  228 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~  228 (532)
                      .++-|.|..|+|||||+..+..... .+..=..++||+....++..     -+++++...
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~-~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~   82 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYM-RQYPDAVCLFYDSEFGITPA-----YLRSMGVDP   82 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHH-HHCTTCEEEEEESSCCCCHH-----HHHHTTCCG
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEeccchhhHH-----HHHHhCCCH
Confidence            4789999999999999998877662 11112478999887777754     266676643

>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=89.14  E-value=0.22  Score=42.33  Aligned_cols=24  Identities=38%  Similarity=0.451  Sum_probs=20.7

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      --|.|+|..|+|||||...+.+..
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999987654

>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=89.14  E-value=0.2  Score=47.60  Aligned_cols=26  Identities=27%  Similarity=0.369  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.++.|+|..|+|||||+..+....
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35789999999999999999988755

>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=89.11  E-value=0.21  Score=43.80  Aligned_cols=25  Identities=24%  Similarity=0.242  Sum_probs=21.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-|.|+|.+|+|||||.+.+.+..
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3457899999999999999998764

>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=89.11  E-value=0.3  Score=42.70  Aligned_cols=26  Identities=35%  Similarity=0.473  Sum_probs=22.0

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHh
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      .....|.|+|.+|+|||||...+.+.
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            35667899999999999999998654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=89.04  E-value=0.21  Score=42.73  Aligned_cols=24  Identities=33%  Similarity=0.605  Sum_probs=20.7

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      --|.++|..|+|||||...+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKGT   27 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            357899999999999999998753

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=89.04  E-value=0.25  Score=42.73  Aligned_cols=26  Identities=38%  Similarity=0.396  Sum_probs=22.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +...|.|+|..|+|||||...+.+..
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~   32 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSK   32 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45678999999999999999987654

>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=89.01  E-value=0.23  Score=43.31  Aligned_cols=33  Identities=24%  Similarity=0.333  Sum_probs=24.7

Q ss_pred             HHHHHhcc-CCceEEEEecCCCCcHHHHHHHHHH
Q 009534          158 RVWRCLTE-EPVGIVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       158 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      ++.+.+.. .+...|.|+|..|+|||||...+..
T Consensus         7 ~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A            7 SMFDKLWGSNKELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             HHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             HHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhc
Confidence            34443444 4567789999999999999988764

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=88.99  E-value=0.22  Score=46.74  Aligned_cols=38  Identities=21%  Similarity=0.389  Sum_probs=28.3

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      ++|+|.|-||+||||+|..+..... . .. ..++-|+...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la-~-~G-~~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLH-A-MG-KTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH-T-TT-CCEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHH-H-CC-CcEEEEcCCC
Confidence            5788899999999999999988873 2 22 2566666543

>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=88.98  E-value=0.23  Score=43.08  Aligned_cols=26  Identities=35%  Similarity=0.402  Sum_probs=22.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...-|.|+|..|+|||||...+....
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCc
Confidence            34568999999999999999987764

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=88.97  E-value=0.22  Score=46.94  Aligned_cols=24  Identities=42%  Similarity=0.436  Sum_probs=21.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -.+++|+|..|.|||||.+.+..-
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCC
Confidence            348999999999999999998754

>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=88.96  E-value=0.32  Score=47.94  Aligned_cols=26  Identities=38%  Similarity=0.456  Sum_probs=22.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            34689999999999999999998754

>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=88.92  E-value=0.34  Score=47.83  Aligned_cols=26  Identities=35%  Similarity=0.456  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            45789999999999999999998755

>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=88.91  E-value=0.23  Score=43.66  Aligned_cols=25  Identities=24%  Similarity=0.223  Sum_probs=21.0

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .--|.|+|..|+|||||...+.+..
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568899999999999998877654

>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=88.85  E-value=0.22  Score=43.11  Aligned_cols=26  Identities=35%  Similarity=0.485  Sum_probs=22.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..-|.|+|..|+|||||.+.+.+..
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCc
Confidence            34568999999999999999998764

>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=88.84  E-value=0.21  Score=43.40  Aligned_cols=24  Identities=25%  Similarity=0.263  Sum_probs=21.0

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..|+|+|..|+|||||.+.+....
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998653

>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=88.80  E-value=0.24  Score=43.45  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=21.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      ..+.+|+|..|.||||++.+++.-
T Consensus        26 ~g~~~i~G~NGsGKStll~ai~~~   49 (182)
T 3kta_A           26 KGFTAIVGANGSGKSNIGDAILFV   49 (182)
T ss_dssp             SSEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHH
Confidence            348899999999999999999764

>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=88.75  E-value=0.28  Score=44.21  Aligned_cols=26  Identities=27%  Similarity=0.232  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....|.|+|..|+|||||...+....
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999998765

>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=88.75  E-value=0.24  Score=42.77  Aligned_cols=25  Identities=36%  Similarity=0.460  Sum_probs=21.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-|.|+|..|+|||||...+....
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            3458999999999999999998654

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=88.74  E-value=0.34  Score=43.09  Aligned_cols=32  Identities=31%  Similarity=0.483  Sum_probs=23.6

Q ss_pred             HHHHh-ccCCceEEEEecCCCCcHHHHHHHHHH
Q 009534          159 VWRCL-TEEPVGIVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       159 l~~~L-~~~~~~vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      +++.+ ...+...|.++|.+|+|||||.+.+.+
T Consensus        15 ~l~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           15 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             HHHHhhccCCCcEEEEECCCCCCHHHHHHHHhc
Confidence            44444 223445688999999999999998864

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=88.74  E-value=0.24  Score=43.62  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=21.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .--|.|+|..|+|||||...+.+..
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhCC
Confidence            4568899999999999999887654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=88.69  E-value=0.34  Score=44.28  Aligned_cols=23  Identities=35%  Similarity=0.238  Sum_probs=20.2

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|-+.|.||+||||+|..+....
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l   30 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQ   30 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH
Confidence            47778999999999999888877

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=88.68  E-value=0.34  Score=44.56  Aligned_cols=48  Identities=21%  Similarity=0.145  Sum_probs=32.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQES  219 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~  219 (532)
                      .-.++.|.|..|+||||+|..+.....   ..=..++|++...  ....+.+.
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~---~~~~~v~~~~~e~--~~~~~~~~   69 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGL---KMGEPGIYVALEE--HPVQVRQN   69 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHH---HTTCCEEEEESSS--CHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEccC--CHHHHHHH
Confidence            346899999999999999988766542   1124677777544  34444443

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=88.66  E-value=0.26  Score=42.62  Aligned_cols=25  Identities=28%  Similarity=0.259  Sum_probs=21.0

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .--|.|+|..|+|||||...+.+..
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhCc
Confidence            3458899999999999999987653

>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=88.65  E-value=0.25  Score=42.16  Aligned_cols=24  Identities=25%  Similarity=0.284  Sum_probs=20.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      --|.|+|..|+|||||...+....
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            457899999999999999998654

>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=88.61  E-value=0.25  Score=43.04  Aligned_cols=25  Identities=32%  Similarity=0.397  Sum_probs=21.8

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-|.|+|..|+|||||...+.+..
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4568899999999999999998764

>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=88.57  E-value=0.16  Score=51.56  Aligned_cols=25  Identities=28%  Similarity=0.449  Sum_probs=22.7

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.|+|.+|+||||++..+....
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999988776

>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=88.56  E-value=0.26  Score=42.60  Aligned_cols=25  Identities=32%  Similarity=0.305  Sum_probs=21.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-|.|+|..|+|||||...+.+..
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4568899999999999999998765

>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=88.52  E-value=0.24  Score=43.64  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=22.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      +...|.|+|..|+|||||...+.+.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4677899999999999999999765

>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=88.52  E-value=0.24  Score=47.44  Aligned_cols=54  Identities=15%  Similarity=0.087  Sum_probs=35.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKI  224 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l  224 (532)
                      .-.+++|.|..|+|||||++.+..... ... =..++|+....  ....+.+.+....
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~-~~~-G~~v~~~~~e~--~~~~~~~r~~~~~   87 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWG-TAM-GKKVGLAMLEE--SVEETAEDLIGLH   87 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHH-HTS-CCCEEEEESSS--CHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH-HHc-CCeEEEEeCcC--CHHHHHHHHHHHH
Confidence            456899999999999999999887762 111 11466665432  4455555554443

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=88.50  E-value=0.14  Score=54.40  Aligned_cols=46  Identities=17%  Similarity=0.165  Sum_probs=32.3

Q ss_pred             CcccccHHHHHHHHHHhccCCce-----------EEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVG-----------IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~-----------vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|.++-++.+.-.+..+..+           -+-++|..|+|||++|+.+.+..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            34677776665555544443211           47789999999999999987765

>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=88.49  E-value=0.23  Score=42.44  Aligned_cols=21  Identities=38%  Similarity=0.471  Sum_probs=18.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHH
Q 009534          170 IVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      -|.++|..|+|||||.+.+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999998854

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=88.49  E-value=0.27  Score=46.81  Aligned_cols=39  Identities=21%  Similarity=0.336  Sum_probs=28.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      .++|+|.|-||+||||+|..+..... . .. ..++-|+...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La-~-~G-~rVlliD~D~   40 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALA-E-MG-KKVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH-H-TT-CCEEEEEECS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHH-H-CC-CeEEEEecCC
Confidence            46888899999999999999988773 1 12 2456666543

>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=88.44  E-value=0.26  Score=43.07  Aligned_cols=24  Identities=29%  Similarity=0.380  Sum_probs=21.0

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      --|.|+|..|+|||||...+.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            357899999999999999998765

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=88.43  E-value=0.25  Score=44.75  Aligned_cols=24  Identities=21%  Similarity=0.358  Sum_probs=21.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+|.|+.|+||||+++.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            479999999999999999998765

>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=88.42  E-value=0.25  Score=42.27  Aligned_cols=24  Identities=33%  Similarity=0.384  Sum_probs=20.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      --|.|+|..|+|||||...+....
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            458899999999999999998654

>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=88.40  E-value=0.23  Score=47.45  Aligned_cols=26  Identities=31%  Similarity=0.449  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|..|.|||||.+.+..-.
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45689999999999999999997654

>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=88.33  E-value=0.25  Score=43.65  Aligned_cols=25  Identities=36%  Similarity=0.509  Sum_probs=21.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|.++|.+|+|||||.+.+.+..
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~~   47 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKNDR   47 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            4468999999999999999998754

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=88.32  E-value=0.27  Score=45.11  Aligned_cols=25  Identities=32%  Similarity=0.315  Sum_probs=21.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...++|.|+.|+||||+|+.+....
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHHHh
Confidence            3468999999999999999998876

>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=88.31  E-value=0.27  Score=42.09  Aligned_cols=25  Identities=28%  Similarity=0.387  Sum_probs=21.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..-|.|+|..|+|||||...+....
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568899999999999999997654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	532
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-10

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 59.8 bits (144), Expect = 1e-10
 Identities = 25/148 (16%), Positives = 47/148 (31%), Gaps = 6/148 (4%)

Query: 144 PLPPTVVGLQSTLDRVWRCLTE---EPVGIVGLYGMGGVGKTTLLTQI-NNSFLHTPNNF 199
           P   T    +  +DRV + L E        + L+G  G GK+ + +Q  + S      N+
Sbjct: 17  PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY 76

Query: 200 DFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIFKTMRNTKFLISNLKM 259
           D ++W   S               + L +E           + +   +       + +  
Sbjct: 77  DSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSV--EHVTSVVLKRMICNALIDR 134

Query: 260 LEALRMFKCGSREQESDSILSGGSLVLV 287
              L +F    +E+            LV
Sbjct: 135 PNTLFVFDDVVQEETIRWAQELRLRCLV 162

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	532
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.61
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.05
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.97
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	98.96
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.96
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.94
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.93
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	98.92
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	98.91
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	98.86
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	98.83
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.82
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.78
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.76
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.75
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.75
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.66
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.64
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	98.61
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	98.58
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.57
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	98.53
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.46
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.44
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.43
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	98.41
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	98.38
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.28
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.26
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.14
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	98.03
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.01
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.0
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	97.69
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	97.59
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.53
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.4
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.29
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.17
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.07
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.05
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.98
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.87
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.81
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.76
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.75
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.54
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.53
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.31
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.22
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.22
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.17
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.14
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.11
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	96.02
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	95.94
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.94
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.92
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.82
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.79
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.76
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.72
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.69
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.67
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.64
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.64
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.6
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.59
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.58
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.56
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	95.53
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.53
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.5
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	95.48
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.44
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.39
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.36
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.33
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	95.28
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.25
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.22
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.1
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.09
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.09
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.07
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	94.93
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	94.92
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.9
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	94.88
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.83
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.53
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.5
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.47
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	94.46
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.44
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	94.43
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.36
d1ls1a2	207	GTPase domain of the signal sequence recognition p	94.2
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	94.16
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	94.15
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.13
d1okkd2	207	GTPase domain of the signal recognition particle r	94.11
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.1
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.05
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.04
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.01
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.0
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.0
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	93.94
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	93.82
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.81
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	93.78
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.7
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	93.69
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	93.69
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	93.64
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	93.29
d1vmaa2	213	GTPase domain of the signal recognition particle r	93.2
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	93.17
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.05
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	93.04
d1j8yf2	211	GTPase domain of the signal sequence recognition p	93.04
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	93.03
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	92.98
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.91
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	92.9
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	92.8
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.7
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	92.65
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	92.63
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	92.6
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	92.57
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	92.51
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	92.47
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	92.44
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	92.2
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.17
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	92.16
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	92.02
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.9
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	91.82
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.79
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	91.78
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.7
d2awna2	232	Maltose transport protein MalK, N-terminal domain	91.59
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	91.58
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	91.51
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	91.49
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	91.38
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	91.35
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.33
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	91.26
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	91.18
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	91.16
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	91.06
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	91.04
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	90.98
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	90.94
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	90.84
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	90.82
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	90.8
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	90.68
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	90.59
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	90.46
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	90.42
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	90.42
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	90.4
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	90.38
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	90.35
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	90.31
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	90.24
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	90.08
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	90.07
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	90.0
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	89.98
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	89.92
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	89.9
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	89.78
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	89.77
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	89.76
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	89.7
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	89.5
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	89.49
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	89.48
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	89.47
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	89.4
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	89.31
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	89.24
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	89.22
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	89.2
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	89.18
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	89.14
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	89.08
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	89.02
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	89.01
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.0
d1nrjb_	209	Signal recognition particle receptor beta-subunit	88.94
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	88.9
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	88.89
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	88.89
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	88.82
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	88.71
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	88.68
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	88.55
d2fh5b1	207	Signal recognition particle receptor beta-subunit	88.55
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	88.49
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	88.45
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	88.43
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	88.22
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	88.21
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	88.11
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	88.04
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	88.03
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	88.01
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	87.95
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	87.95
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	87.82
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	87.77
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	87.66
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	87.52
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	87.29
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	87.22
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	87.2
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	87.15
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	87.06
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	87.06
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	87.01
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	86.96
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	86.86
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	86.84
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	86.75
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	86.72
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	86.67
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	86.6
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	86.5
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	86.36
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	86.32
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	86.28
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	85.92
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	85.78
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	85.75
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	85.48
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.46
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	85.3
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	85.06
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	84.85
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	84.43
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	84.02
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	83.73
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	83.54
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	83.4
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	83.07
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	82.89
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	82.49
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	82.16
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	81.59
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	81.54
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	81.47
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	81.37
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	80.65
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	80.31

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=99.61  E-value=2.6e-15  Score=143.39  Aligned_cols=111  Identities=17%  Similarity=0.021  Sum_probs=84.7

Q ss_pred             CCCcccccHHHHHHHHHHhcc---CCceEEEEecCCCCcHHHHHHHHHHhcc-CCCCCCCeEEEEEeCCCCCHHHHHHHH
Q 009534          145 LPPTVVGLQSTLDRVWRCLTE---EPVGIVGLYGMGGVGKTTLLTQINNSFL-HTPNNFDFVIWEVVSRDLQLGKIQESI  220 (532)
Q Consensus       145 ~~~~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLa~~v~~~~~-~~~~~F~~~~wv~v~~~~~~~~l~~~i  220 (532)
                      ..++++||+.++++|+++|..   .+.++|+|+||||+||||||+++|++.. ..+.+|++++||++++.++...+...+
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~   97 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFT   97 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHH
Confidence            346789999999999999853   4689999999999999999999999851 146689999999999999887777666


Q ss_pred             HHHhc---CCCC-----CCCCCCHHHHHHHHHHHhcCCcEEEe
Q 009534          221 AKKIG---LCNE-----SWDSKSFDEKAQEIFKTMRNTKFLIS  255 (532)
Q Consensus       221 ~~~l~---~~~~-----~~~~~~~~~~~~~l~~~L~~kr~LlV  255 (532)
                      ...+.   ....     .............+.+.+.++|+|+|
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlV  140 (277)
T d2a5yb3          98 DILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFV  140 (277)
T ss_dssp             HHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEE
T ss_pred             HHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEe
Confidence            55442   2110     01222334455678889999999999

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=2.5e-11  Score=115.83  Aligned_cols=162  Identities=23%  Similarity=0.311  Sum_probs=99.2

Q ss_pred             hcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccc-cccccccceeeccccCcceeeecc
Q 009534          290 LLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTL-ASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       290 l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l-~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      +..+++|++|+  +.++..-......  + ..+++|++|++++|..++......+ .++++|++|++++|..+.+-....
T Consensus        67 ~~~c~~L~~L~--L~~~~l~~~~~~~--l-~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~ls~c~~~~~~~~~~  141 (284)
T d2astb2          67 LSQCSKLQNLS--LEGLRLSDPIVNT--L-AKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQV  141 (284)
T ss_dssp             HTTBCCCSEEE--CTTCBCCHHHHHH--H-TTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHH
T ss_pred             HHhCCCccccc--ccccCCCcHHHHH--H-hcCCCCcCccccccccccccccchhhHHHHhccccccccccccccccchh
Confidence            45667777777  4444211111110  1 1136688888888877765433222 467788888888887664321100


Q ss_pred             cCCccccccccCCCCCccEEEEeCC--cccc--CCc-hhcCCCcceeeeccccccccccccccccCcCcccCcccccccc
Q 009534          369 AGGEVKRIRETHGFFSLHKVSIWGS--KLRH--VTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFAR  443 (532)
Q Consensus       369 ~~~~~~~~~~~~~l~~L~~L~l~~c--~L~~--l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~  443 (532)
                      .-        ....++|+.|++.+|  .++.  +.. ...+|+|++|++++|..+.+-..            ..+..+++
T Consensus       142 ~~--------~~~~~~L~~L~l~~~~~~i~~~~l~~l~~~~~~L~~L~L~~~~~itd~~~------------~~l~~~~~  201 (284)
T d2astb2         142 AV--------AHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCF------------QEFFQLNY  201 (284)
T ss_dssp             HH--------HHSCTTCCEEECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGG------------GGGGGCTT
T ss_pred             hh--------cccccccchhhhcccccccccccccccccccccccccccccccCCCchhh------------hhhcccCc
Confidence            00        013467888888887  3443  222 45678888888888877654322            25667888


Q ss_pred             cceeeccccccccccCC-CCcCCCCccEEeecCC
Q 009534          444 LERLSLGGLENLRSIYP-RALPFPHLKELHVTLC  476 (532)
Q Consensus       444 L~~L~l~~~~~L~~i~~-~~~~~p~L~~L~i~~C  476 (532)
                      |++|++++|+++..-.. ....+|+|+.|++.+|
T Consensus       202 L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         202 LQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             CCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             CCEEECCCCCCCChHHHHHHhcCCCCCEEeeeCC
Confidence            88888888887754322 3456888888888887

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.97  E-value=8.6e-10  Score=99.97  Aligned_cols=129  Identities=19%  Similarity=0.310  Sum_probs=88.3

Q ss_pred             cccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc
Q 009534          321 IVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW  400 (532)
Q Consensus       321 ~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~  400 (532)
                      .|++|++|+++++. ++.++.  +..+++|+.|+++++ .++.++. .           ..+++|+.|++.+|.+..++.
T Consensus        66 ~l~~L~~L~L~~n~-i~~l~~--~~~l~~L~~L~l~~n-~i~~l~~-l-----------~~l~~L~~L~l~~~~~~~~~~  129 (210)
T d1h6ta2          66 YLPNVTKLFLNGNK-LTDIKP--LANLKNLGWLFLDEN-KVKDLSS-L-----------KDLKKLKSLSLEHNGISDING  129 (210)
T ss_dssp             GCTTCCEEECCSSC-CCCCGG--GTTCTTCCEEECCSS-CCCCGGG-G-----------TTCTTCCEEECTTSCCCCCGG
T ss_pred             hCCCCCEEeCCCcc-ccCccc--cccCccccccccccc-ccccccc-c-----------ccccccccccccccccccccc
Confidence            35678888888863 666653  567788888888776 4555432 2           247788888888886667777


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLK  480 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~  480 (532)
                      +..+++|+.+++.++. +....              ....+++|+.+++.++ .+..++. ...+++|+.|++++| +++
T Consensus       130 l~~l~~l~~l~~~~n~-l~~~~--------------~~~~l~~L~~l~l~~n-~l~~i~~-l~~l~~L~~L~Ls~N-~i~  191 (210)
T d1h6ta2         130 LVHLPQLESLYLGNNK-ITDIT--------------VLSRLTKLDTLSLEDN-QISDIVP-LAGLTKLQNLYLSKN-HIS  191 (210)
T ss_dssp             GGGCTTCCEEECCSSC-CCCCG--------------GGGGCTTCSEEECCSS-CCCCCGG-GTTCTTCCEEECCSS-CCC
T ss_pred             cccccccccccccccc-ccccc--------------cccccccccccccccc-ccccccc-ccCCCCCCEEECCCC-CCC
Confidence            7778888888886543 33332              3455778888888776 4566543 556788888888877 577


Q ss_pred             CCC
Q 009534          481 KLP  483 (532)
Q Consensus       481 ~lp  483 (532)
                      .+|
T Consensus       192 ~l~  194 (210)
T d1h6ta2         192 DLR  194 (210)
T ss_dssp             BCG
T ss_pred             CCh
Confidence            776

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=3.5e-09  Score=99.54  Aligned_cols=162  Identities=20%  Similarity=0.226  Sum_probs=99.3

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-hh
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LI  402 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~  402 (532)
                      ++++|+|+++ .++.++...+.++++|++|+++++ .++.++..  .          .+++|++|++++|+++..+. +.
T Consensus        32 ~l~~L~Ls~N-~i~~l~~~~f~~l~~L~~L~L~~N-~l~~l~~~--~----------~l~~L~~L~Ls~N~l~~~~~~~~   97 (266)
T d1p9ag_          32 DTTILHLSEN-LLYTFSLATLMPYTRLTQLNLDRA-ELTKLQVD--G----------TLPVLGTLDLSHNQLQSLPLLGQ   97 (266)
T ss_dssp             TCCEEECTTS-CCSEEEGGGGTTCTTCCEEECTTS-CCCEEECC--S----------CCTTCCEEECCSSCCSSCCCCTT
T ss_pred             CCCEEECcCC-cCCCcCHHHhhccccccccccccc-cccccccc--c----------ccccccccccccccccccccccc
Confidence            4777777763 466666655666777777777765 45555432  1          36666666666665555432 45


Q ss_pred             cCCCcceeeecccccccccccccccc------------CcCcccCcccccccccceeeccccccccccCCC-CcCCCCcc
Q 009534          403 LAPNLKLIQMYDCRCLEEIISLEKLG------------EVPSEEMQNLIPFARLERLSLGGLENLRSIYPR-ALPFPHLK  469 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~~~~~~~------------~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~-~~~~p~L~  469 (532)
                      .+++|+.|+++++.. ..+.......            ......+..+..+++|+.|++.++ +++.++.. ...+++|+
T Consensus        98 ~l~~L~~L~l~~~~~-~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N-~l~~~~~~~~~~l~~L~  175 (266)
T d1p9ag_          98 TLPALTVLDVSFNRL-TSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN-NLTELPAGLLNGLENLD  175 (266)
T ss_dssp             TCTTCCEEECCSSCC-CCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS-CCSCCCTTTTTTCTTCC
T ss_pred             ccccccccccccccc-ceeeccccccccccccccccccccceeccccccccccchhcccccc-cccccCccccccccccc
Confidence            566666666655432 2221111000            000001134566889999999986 67888764 45689999


Q ss_pred             EEeecCCCCCCCCCCCCCCCCCceeEEecchhhh
Q 009534          470 ELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEWW  503 (532)
Q Consensus       470 ~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~w~  503 (532)
                      .|+++++ +|+.||.+.... ..|+.++...+.|
T Consensus       176 ~L~Ls~N-~L~~lp~~~~~~-~~L~~L~L~~Np~  207 (266)
T d1p9ag_         176 TLLLQEN-SLYTIPKGFFGS-HLLPFAFLHGNPW  207 (266)
T ss_dssp             EEECCSS-CCCCCCTTTTTT-CCCSEEECCSCCB
T ss_pred             eeecccC-CCcccChhHCCC-CCCCEEEecCCCC
Confidence            9999997 599999876655 6666665554444

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.96  E-value=1.1e-09  Score=100.43  Aligned_cols=169  Identities=17%  Similarity=0.265  Sum_probs=108.0

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      .++.+..+++|+.|+++  ++. +..+..    ...+++++.+.++++. ++.++.  +..+++|+.+.+.+|.... ++
T Consensus        55 ~l~~l~~l~~L~~L~ls--~n~-i~~~~~----l~~l~~l~~l~~~~n~-~~~i~~--l~~l~~L~~l~l~~~~~~~-~~  123 (227)
T d1h6ua2          55 TIEGVQYLNNLIGLELK--DNQ-ITDLAP----LKNLTKITELELSGNP-LKNVSA--IAGLQSIKTLDLTSTQITD-VT  123 (227)
T ss_dssp             CCTTGGGCTTCCEEECC--SSC-CCCCGG----GTTCCSCCEEECCSCC-CSCCGG--GTTCTTCCEEECTTSCCCC-CG
T ss_pred             cchhHhcCCCCcEeecC--Cce-eecccc----cccccccccccccccc-cccccc--ccccccccccccccccccc-cc
Confidence            34556677777777743  321 111111    1224567777777754 555543  5667778888777764322 21


Q ss_pred             ecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccc
Q 009534          366 IDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLE  445 (532)
Q Consensus       366 ~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~  445 (532)
                      .            ....+.++.+.+.+|.+.....+...++|+.|.+.+|. +....              .+..+++|+
T Consensus       124 ~------------~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~-~~~~~--------------~l~~l~~L~  176 (227)
T d1h6ua2         124 P------------LAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQ-VSDLT--------------PLANLSKLT  176 (227)
T ss_dssp             G------------GTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSC-CCCCG--------------GGTTCTTCC
T ss_pred             h------------hccccchhhhhchhhhhchhhhhccccccccccccccc-cccch--------------hhcccccce
Confidence            1            12467778888877766666567788889999987664 33322              466789999


Q ss_pred             eeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEe
Q 009534          446 RLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIK  497 (532)
Q Consensus       446 ~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~  497 (532)
                      .|+++++ ++++++. ...+|+|+.|++++| +++.+|. ... ++.|+..+
T Consensus       177 ~L~Ls~n-~l~~l~~-l~~l~~L~~L~Ls~N-~lt~i~~-l~~-l~~L~~L~  223 (227)
T d1h6ua2         177 TLKADDN-KISDISP-LASLPNLIEVHLKNN-QISDVSP-LAN-TSNLFIVT  223 (227)
T ss_dssp             EEECCSS-CCCCCGG-GGGCTTCCEEECTTS-CCCBCGG-GTT-CTTCCEEE
T ss_pred             ecccCCC-ccCCChh-hcCCCCCCEEECcCC-cCCCCcc-ccc-CCCCCEEE
Confidence            9999887 6777754 667899999999998 6888863 122 35555544

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.94  E-value=1.1e-09  Score=98.44  Aligned_cols=129  Identities=15%  Similarity=0.299  Sum_probs=98.2

Q ss_pred             cccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc
Q 009534          321 IVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW  400 (532)
Q Consensus       321 ~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~  400 (532)
                      .|++|++|+++++ .++.++.  +.++++|+.|.++++. +..++.            ...+++|+.|++.+|....++.
T Consensus        60 ~l~nL~~L~Ls~N-~l~~~~~--l~~l~~L~~L~l~~n~-~~~~~~------------l~~l~~L~~L~l~~~~~~~~~~  123 (199)
T d2omxa2          60 YLNNLTQINFSNN-QLTDITP--LKNLTKLVDILMNNNQ-IADITP------------LANLTNLTGLTLFNNQITDIDP  123 (199)
T ss_dssp             GCTTCCEEECCSS-CCCCCGG--GTTCTTCCEEECCSSC-CCCCGG------------GTTCTTCSEEECCSSCCCCCGG
T ss_pred             cCCCcCcCccccc-cccCccc--ccCCcccccccccccc-cccccc------------cccccccccccccccccccccc
Confidence            3577999999987 4777764  7888899999998874 343432            2258899999998886667777


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLK  480 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~  480 (532)
                      +..+++|+.|+++++. +..++              .+..+++|+.|++.++ +++.++. ...+++|+.|++++| +++
T Consensus       124 ~~~l~~L~~L~l~~n~-l~~~~--------------~l~~~~~L~~L~l~~n-~l~~l~~-l~~l~~L~~L~ls~N-~i~  185 (199)
T d2omxa2         124 LKNLTNLNRLELSSNT-ISDIS--------------ALSGLTSLQQLNFSSN-QVTDLKP-LANLTTLERLDISSN-KVS  185 (199)
T ss_dssp             GTTCTTCSEEECCSSC-CCCCG--------------GGTTCTTCSEEECCSS-CCCCCGG-GTTCTTCCEEECCSS-CCC
T ss_pred             cchhhhhHHhhhhhhh-hcccc--------------cccccccccccccccc-cccCCcc-ccCCCCCCEEECCCC-CCC
Confidence            8889999999998764 44442              4666889999999886 5677653 667899999999998 588


Q ss_pred             CCC
Q 009534          481 KLP  483 (532)
Q Consensus       481 ~lp  483 (532)
                      .+|
T Consensus       186 ~i~  188 (199)
T d2omxa2         186 DIS  188 (199)
T ss_dssp             CCG
T ss_pred             CCc
Confidence            776

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.93  E-value=2.4e-09  Score=96.88  Aligned_cols=150  Identities=17%  Similarity=0.203  Sum_probs=108.1

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      .+..+..+++|+.|+++  .+ .+..+..    ...+++|+.|+++++ .++.++.  +..+++|+.|.+.+|.. ..++
T Consensus        60 ~l~~l~~l~~L~~L~L~--~n-~i~~l~~----~~~l~~L~~L~l~~n-~i~~l~~--l~~l~~L~~L~l~~~~~-~~~~  128 (210)
T d1h6ta2          60 SVQGIQYLPNVTKLFLN--GN-KLTDIKP----LANLKNLGWLFLDEN-KVKDLSS--LKDLKKLKSLSLEHNGI-SDIN  128 (210)
T ss_dssp             CCTTGGGCTTCCEEECC--SS-CCCCCGG----GTTCTTCCEEECCSS-CCCCGGG--GTTCTTCCEEECTTSCC-CCCG
T ss_pred             CchhHhhCCCCCEEeCC--Cc-cccCccc----cccCccccccccccc-ccccccc--ccccccccccccccccc-cccc
Confidence            34456778889988854  33 1222221    123577999999986 4777763  77888999999988753 3232


Q ss_pred             ecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccc
Q 009534          366 IDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLE  445 (532)
Q Consensus       366 ~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~  445 (532)
                      .            ...+++|+.+.+.+|.++.++....+++|+.+.++++. +..++              .+..+++|+
T Consensus       129 ~------------l~~l~~l~~l~~~~n~l~~~~~~~~l~~L~~l~l~~n~-l~~i~--------------~l~~l~~L~  181 (210)
T d1h6ta2         129 G------------LVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQ-ISDIV--------------PLAGLTKLQ  181 (210)
T ss_dssp             G------------GGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSSC-CCCCG--------------GGTTCTTCC
T ss_pred             c------------cccccccccccccccccccccccccccccccccccccc-ccccc--------------cccCCCCCC
Confidence            1            23578899999988888888778889999999998764 55553              356689999


Q ss_pred             eeeccccccccccCCCCcCCCCccEEeecC
Q 009534          446 RLSLGGLENLRSIYPRALPFPHLKELHVTL  475 (532)
Q Consensus       446 ~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~  475 (532)
                      .|+++++ .+++++ .+..+++|+.|++++
T Consensus       182 ~L~Ls~N-~i~~l~-~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         182 NLYLSKN-HISDLR-ALAGLKNLDVLELFS  209 (210)
T ss_dssp             EEECCSS-CCCBCG-GGTTCTTCSEEEEEE
T ss_pred             EEECCCC-CCCCCh-hhcCCCCCCEEEccC
Confidence            9999987 578876 466788999998864

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=2.1e-09  Score=101.13  Aligned_cols=128  Identities=22%  Similarity=0.258  Sum_probs=84.2

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      ++|++|+++++. +...+.. +..+++|+.|+++++. +..++....          ..+.+|++|.+.+|.+..++.  
T Consensus        77 ~~L~~L~Ls~N~-l~~~~~~-~~~l~~L~~L~l~~~~-~~~~~~~~~----------~~l~~l~~L~l~~n~l~~l~~~~  143 (266)
T d1p9ag_          77 PVLGTLDLSHNQ-LQSLPLL-GQTLPALTVLDVSFNR-LTSLPLGAL----------RGLGELQELYLKGNELKTLPPGL  143 (266)
T ss_dssp             TTCCEEECCSSC-CSSCCCC-TTTCTTCCEEECCSSC-CCCCCSSTT----------TTCTTCCEEECTTSCCCCCCTTT
T ss_pred             cccccccccccc-ccccccc-cccccccccccccccc-cceeecccc----------ccccccccccccccccceecccc
Confidence            445555555542 4443332 4455555555555542 222332222          256777777777776666654  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCC
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  477 (532)
                      +..+++|+.|+++++ ++..++.            ..+..+++|++|+|+++ +++.+|..++.+++|+.|++.+.|
T Consensus       144 ~~~l~~l~~l~l~~N-~l~~~~~------------~~~~~l~~L~~L~Ls~N-~L~~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         144 LTPTPKLEKLSLANN-NLTELPA------------GLLNGLENLDTLLLQEN-SLYTIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             TTTCTTCCEEECTTS-CCSCCCT------------TTTTTCTTCCEEECCSS-CCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             ccccccchhcccccc-cccccCc------------cccccccccceeecccC-CCcccChhHCCCCCCCEEEecCCC
Confidence            456778888888665 4666654            35778999999999997 599999999999999999998743

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.91  E-value=2e-09  Score=96.53  Aligned_cols=146  Identities=14%  Similarity=0.232  Sum_probs=109.3

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEME  365 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~  365 (532)
                      .++.+..+++|++|+++  .+ .+..+..    ...+++|++|+++++. +..++.  +.++++|+.|.+++|.... ++
T Consensus        54 ~l~~l~~l~nL~~L~Ls--~N-~l~~~~~----l~~l~~L~~L~l~~n~-~~~~~~--l~~l~~L~~L~l~~~~~~~-~~  122 (199)
T d2omxa2          54 SIDGVEYLNNLTQINFS--NN-QLTDITP----LKNLTKLVDILMNNNQ-IADITP--LANLTNLTGLTLFNNQITD-ID  122 (199)
T ss_dssp             CCTTGGGCTTCCEEECC--SS-CCCCCGG----GTTCTTCCEEECCSSC-CCCCGG--GTTCTTCSEEECCSSCCCC-CG
T ss_pred             CccccccCCCcCcCccc--cc-cccCccc----ccCCcccccccccccc-cccccc--ccccccccccccccccccc-cc
Confidence            45667888999999954  43 2222222    2245789999999875 566653  7889999999999875443 22


Q ss_pred             ecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccc
Q 009534          366 IDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLE  445 (532)
Q Consensus       366 ~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~  445 (532)
                        ..          ..+++|+.|++++|++..++.+..+++|+.|++.+| .+..++              .+..+++|+
T Consensus       123 --~~----------~~l~~L~~L~l~~n~l~~~~~l~~~~~L~~L~l~~n-~l~~l~--------------~l~~l~~L~  175 (199)
T d2omxa2         123 --PL----------KNLTNLNRLELSSNTISDISALSGLTSLQQLNFSSN-QVTDLK--------------PLANLTTLE  175 (199)
T ss_dssp             --GG----------TTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSS-CCCCCG--------------GGTTCTTCC
T ss_pred             --cc----------chhhhhHHhhhhhhhhcccccccccccccccccccc-cccCCc--------------cccCCCCCC
Confidence              22          258999999999998888888999999999999876 466653              467799999


Q ss_pred             eeeccccccccccCCCCcCCCCccEE
Q 009534          446 RLSLGGLENLRSIYPRALPFPHLKEL  471 (532)
Q Consensus       446 ~L~l~~~~~L~~i~~~~~~~p~L~~L  471 (532)
                      +|+++++ ++++++ ....+++|++|
T Consensus       176 ~L~ls~N-~i~~i~-~l~~L~~L~~L  199 (199)
T d2omxa2         176 RLDISSN-KVSDIS-VLAKLTNLESL  199 (199)
T ss_dssp             EEECCSS-CCCCCG-GGGGCTTCSEE
T ss_pred             EEECCCC-CCCCCc-cccCCCCCCcC
Confidence            9999998 588875 35667777765

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.86  E-value=5.6e-09  Score=95.62  Aligned_cols=60  Identities=13%  Similarity=0.184  Sum_probs=41.8

Q ss_pred             ccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecchh
Q 009534          437 NLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEE  501 (532)
Q Consensus       437 ~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~  501 (532)
                      .+..+++|+.|++.++. +..++ ....+++|+.|++++| +++.+|. .. .+++|+..+....
T Consensus       146 ~~~~~~~L~~L~l~~n~-~~~~~-~l~~l~~L~~L~Ls~n-~l~~l~~-l~-~l~~L~~L~Ls~N  205 (227)
T d1h6ua2         146 PLAGLTNLQYLSIGNAQ-VSDLT-PLANLSKLTTLKADDN-KISDISP-LA-SLPNLIEVHLKNN  205 (227)
T ss_dssp             GGGGCTTCCEEECCSSC-CCCCG-GGTTCTTCCEEECCSS-CCCCCGG-GG-GCTTCCEEECTTS
T ss_pred             hhccccccccccccccc-cccch-hhcccccceecccCCC-ccCCChh-hc-CCCCCCEEECcCC
Confidence            45667899999998863 44443 3567999999999998 7888864 11 2356666655443

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.83  E-value=5.9e-09  Score=98.90  Aligned_cols=165  Identities=18%  Similarity=0.199  Sum_probs=110.1

Q ss_pred             hhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeec
Q 009534          288 EELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEID  367 (532)
Q Consensus       288 ~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~  367 (532)
                      ..+..+++|+.|+++....   ..+...  ....++.+..+.+.....+..++...+.++++|+.|++.++. +..++..
T Consensus        50 ~~f~~l~~L~~L~ls~n~l---~~i~~~--~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~-~~~~~~~  123 (284)
T d1ozna_          50 ASFRACRNLTILWLHSNVL---ARIDAA--AFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCG-LQELGPG  123 (284)
T ss_dssp             TTTTTCTTCCEEECCSSCC---CEECTT--TTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSC-CCCCCTT
T ss_pred             HHhhccccccccccccccc---cccccc--cccccccccccccccccccccccchhhcccccCCEEecCCcc-ccccccc
Confidence            3455666777777432211   111111  111134466777666677777766667788888888888764 3334433


Q ss_pred             ccCCccccccccCCCCCccEEEEeCCccccCCc--hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccc
Q 009534          368 YAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLE  445 (532)
Q Consensus       368 ~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~  445 (532)
                      ...          .+++|+.+++.++.++.++.  +..+++|+.|+++++. +..++.            ..+..+++|+
T Consensus       124 ~~~----------~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~-l~~l~~------------~~f~~l~~L~  180 (284)
T d1ozna_         124 LFR----------GLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNR-ISSVPE------------RAFRGLHSLD  180 (284)
T ss_dssp             TTT----------TCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC-CCEECT------------TTTTTCTTCC
T ss_pred             ccc----------hhcccchhhhccccccccChhHhccccchhhcccccCc-ccccch------------hhhccccccc
Confidence            332          57889999999888888764  6678889999998774 677755            3667789999


Q ss_pred             eeecccccccccc-CCCCcCCCCccEEeecCCCCCCCCC
Q 009534          446 RLSLGGLENLRSI-YPRALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       446 ~L~l~~~~~L~~i-~~~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      .+++.++. +..+ |..+..+++|+.|+++++. +..+|
T Consensus       181 ~l~l~~N~-l~~i~~~~f~~l~~L~~L~l~~N~-i~~~~  217 (284)
T d1ozna_         181 RLLLHQNR-VAHVHPHAFRDLGRLMTLYLFANN-LSALP  217 (284)
T ss_dssp             EEECCSSC-CCEECTTTTTTCTTCCEEECCSSC-CSCCC
T ss_pred             hhhhhhcc-ccccChhHhhhhhhcccccccccc-ccccc
Confidence            99999864 4445 5567788999999999865 45554

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.82  E-value=3.4e-10  Score=107.83  Aligned_cols=169  Identities=17%  Similarity=0.220  Sum_probs=110.9

Q ss_pred             chhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccc-ccc-ccccccceeecccc-Ccc
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVL-TLA-SLRHLEALDMRYCK-DLE  362 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~-~l~-~l~~L~~L~i~~c~-~L~  362 (532)
                      .+..+..+++|+.|+  +.+|..+..-. .......+++|++|++++|..+..-... .+. ..++|+.|++.+|. .+.
T Consensus        87 ~~~~l~~~~~L~~L~--Ls~c~~itd~~-l~~l~~~~~~L~~L~ls~c~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~  163 (284)
T d2astb2          87 IVNTLAKNSNLVRLN--LSGCSGFSEFA-LQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQ  163 (284)
T ss_dssp             HHHHHTTCTTCSEEE--CTTCBSCCHHH-HHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCEEECCSCGGGSC
T ss_pred             HHHHHhcCCCCcCcc--ccccccccccc-cchhhHHHHhccccccccccccccccchhhhcccccccchhhhcccccccc
Confidence            566677889999999  55554332110 0111223478999999999887653221 132 34789999999874 333


Q ss_pred             eeeecccCCccccccccCCCCCccEEEEeCC-cccc--CCchhcCCCcceeeeccccccccccccccccCcCcccCcccc
Q 009534          363 EMEIDYAGGEVKRIRETHGFFSLHKVSIWGS-KLRH--VTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLI  439 (532)
Q Consensus       363 ~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c-~L~~--l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~  439 (532)
                      .-.....         ...+++|++|++++| .++.  +..+..+++|++|++++|+.+.+-..            ..+.
T Consensus       164 ~~~l~~l---------~~~~~~L~~L~L~~~~~itd~~~~~l~~~~~L~~L~L~~C~~i~~~~l------------~~L~  222 (284)
T d2astb2         164 KSDLSTL---------VRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETL------------LELG  222 (284)
T ss_dssp             HHHHHHH---------HHHCTTCSEEECTTCTTCCGGGGGGGGGCTTCCEEECTTCTTCCGGGG------------GGGG
T ss_pred             ccccccc---------ccccccccccccccccCCCchhhhhhcccCcCCEEECCCCCCCChHHH------------HHHh
Confidence            2111111         125799999999999 8875  55688999999999999988754432            2567


Q ss_pred             cccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCC
Q 009534          440 PFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKL  482 (532)
Q Consensus       440 ~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~l  482 (532)
                      .+|+|+.|++.+|-.-..+..-...+|.|+.    +|.++..+
T Consensus       223 ~~~~L~~L~l~~~~~d~~l~~l~~~lp~L~i----~~~~ls~~  261 (284)
T d2astb2         223 EIPTLKTLQVFGIVPDGTLQLLKEALPHLQI----NCSHFTTI  261 (284)
T ss_dssp             GCTTCCEEECTTSSCTTCHHHHHHHSTTSEE----SCCCSCCT
T ss_pred             cCCCCCEEeeeCCCCHHHHHHHHHhCccccc----cCccCCCC
Confidence            7899999999988322222222234777663    67777765

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.78  E-value=2.6e-08  Score=95.33  Aligned_cols=121  Identities=10%  Similarity=0.018  Sum_probs=75.8

Q ss_pred             CCCCCccEEEEeCCccccCCchhcCCCcceeeecccccccccccccccc-----------CcCcccCcccccccccceee
Q 009534          380 HGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLG-----------EVPSEEMQNLIPFARLERLS  448 (532)
Q Consensus       380 ~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~-----------~~~~~~~~~~~~~~~L~~L~  448 (532)
                      ..+++|+++.+.+|.+..+| ...+++|+.|++.++......+......           ......+..+..+++|++|+
T Consensus       147 ~~l~~L~~l~l~~n~l~~l~-~~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l~~~~~~~~~~l~~L~~L~  225 (305)
T d1xkua_         147 QGMKKLSYIRIADTNITTIP-QGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELH  225 (305)
T ss_dssp             GGCTTCCEEECCSSCCCSCC-SSCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCCCEECTTTGGGSTTCCEEE
T ss_pred             ccccccCccccccCCccccC-cccCCccCEEECCCCcCCCCChhHhhccccccccccccccccccccccccccccceeee
Confidence            45667888888877777665 2346777777776554322222111000           00011123567789999999


Q ss_pred             ccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCC------CCCCCceeEEecchhhh
Q 009534          449 LGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDC------TSGHERKLIIKGQEEWW  503 (532)
Q Consensus       449 l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~------~~~l~~L~~~~~~~~w~  503 (532)
                      |+++ +++.+|.....+++|+.|+++++ +|+.|+...      ...+..|+........|
T Consensus       226 L~~N-~L~~lp~~l~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~~  284 (305)
T d1xkua_         226 LNNN-KLVKVPGGLADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNPV  284 (305)
T ss_dssp             CCSS-CCSSCCTTTTTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSSS
T ss_pred             cccc-cccccccccccccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEECCCCcC
Confidence            9997 78899888888999999999997 688886432      11145556555554433

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.76  E-value=2.2e-08  Score=95.82  Aligned_cols=198  Identities=18%  Similarity=0.163  Sum_probs=107.5

Q ss_pred             ccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCcc
Q 009534          294 KHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEV  373 (532)
Q Consensus       294 ~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~  373 (532)
                      ++++.|+++  .+ .+..++..  ....+++|++|+++++. +..++...+.++++|+.|++.++ .++.++......-.
T Consensus        31 ~~l~~L~Ls--~N-~i~~l~~~--~f~~l~~L~~L~l~~n~-~~~i~~~~f~~l~~L~~L~l~~n-~l~~l~~~~~~~l~  103 (305)
T d1xkua_          31 PDTALLDLQ--NN-KITEIKDG--DFKNLKNLHTLILINNK-ISKISPGAFAPLVKLERLYLSKN-QLKELPEKMPKTLQ  103 (305)
T ss_dssp             TTCCEEECC--SS-CCCCBCTT--TTTTCTTCCEEECCSSC-CCCBCTTTTTTCTTCCEEECCSS-CCSBCCSSCCTTCC
T ss_pred             CCCCEEECc--CC-cCCCcChh--Hhhcccccccccccccc-ccccchhhhhCCCccCEecccCC-ccCcCccchhhhhh
Confidence            457777733  33 23333321  12234667788777765 45554445777777888877775 45555432211000


Q ss_pred             -----------ccccccCCCCCccEEEEeCCcccc--C--CchhcCCCcceeeecccccccccccccccc---------C
Q 009534          374 -----------KRIRETHGFFSLHKVSIWGSKLRH--V--TWLILAPNLKLIQMYDCRCLEEIISLEKLG---------E  429 (532)
Q Consensus       374 -----------~~~~~~~~l~~L~~L~l~~c~L~~--l--~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~---------~  429 (532)
                                 ...........+..+.+..+....  .  ..+..+++|+.+.+.+|. +..++......         .
T Consensus       104 ~L~~~~n~l~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~-l~~l~~~~~~~L~~L~l~~n~  182 (305)
T d1xkua_         104 ELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQGLPPSLTELHLDGNK  182 (305)
T ss_dssp             EEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSC-CCSCCSSCCTTCSEEECTTSC
T ss_pred             hhhccccchhhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCC-ccccCcccCCccCEEECCCCc
Confidence                       000001122233444444331111  1  125567788888887654 43343211100         0


Q ss_pred             cCcccCcccccccccceeeccccccccccCC-CCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecchhh
Q 009534          430 VPSEEMQNLIPFARLERLSLGGLENLRSIYP-RALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEEW  502 (532)
Q Consensus       430 ~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~-~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~w  502 (532)
                      .....+..+..++.++.|+++++ .+.+++. ....+++|++|++++| +++.+|.+.... +.|+..+....-
T Consensus       183 ~~~~~~~~~~~~~~l~~L~~s~n-~l~~~~~~~~~~l~~L~~L~L~~N-~L~~lp~~l~~l-~~L~~L~Ls~N~  253 (305)
T d1xkua_         183 ITKVDAASLKGLNNLAKLGLSFN-SISAVDNGSLANTPHLRELHLNNN-KLVKVPGGLADH-KYIQVVYLHNNN  253 (305)
T ss_dssp             CCEECTGGGTTCTTCCEEECCSS-CCCEECTTTGGGSTTCCEEECCSS-CCSSCCTTTTTC-SSCCEEECCSSC
T ss_pred             CCCCChhHhhccccccccccccc-cccccccccccccccceeeecccc-cccccccccccc-cCCCEEECCCCc
Confidence            00011234566677888888876 5666654 4456899999999999 899999876554 777777776543

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=6.9e-09  Score=89.64  Aligned_cols=122  Identities=13%  Similarity=0.185  Sum_probs=83.6

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc--
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--  400 (532)
                      .++++|+|+++. ++.++. .+..+++|+.|+++++ .++.++. .           ..+++|++|++++|+++.++.  
T Consensus        18 ~~lr~L~L~~n~-I~~i~~-~~~~l~~L~~L~Ls~N-~i~~l~~-~-----------~~l~~L~~L~ls~N~i~~l~~~~   82 (162)
T d1a9na_          18 VRDRELDLRGYK-IPVIEN-LGATLDQFDAIDFSDN-EIRKLDG-F-----------PLLRRLKTLLVNNNRICRIGEGL   82 (162)
T ss_dssp             TSCEEEECTTSC-CCSCCC-GGGGTTCCSEEECCSS-CCCEECC-C-----------CCCSSCCEEECCSSCCCEECSCH
T ss_pred             CcCcEEECCCCC-CCccCc-cccccccCCEEECCCC-CCCccCC-c-----------ccCcchhhhhcccccccCCCccc
Confidence            458888888854 777763 2467788899998886 5666632 2           258889999998888888764  


Q ss_pred             hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC----CCcCCCCccEEe
Q 009534          401 LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP----RALPFPHLKELH  472 (532)
Q Consensus       401 l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~----~~~~~p~L~~L~  472 (532)
                      ...+++|+.|++.++. +..+..           -..+..+++|++|++.+++ +...+.    .+..+|+|+.|+
T Consensus        83 ~~~l~~L~~L~L~~N~-i~~~~~-----------l~~l~~l~~L~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          83 DQALPDLTELILTNNS-LVELGD-----------LDPLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             HHHCTTCCEEECCSCC-CCCGGG-----------GGGGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEET
T ss_pred             cccccccccceecccc-cccccc-----------ccccccccccchhhcCCCc-cccccchHHHHHHHCCCcCeeC
Confidence            4678889999988764 444432           1146668888888888875 444442    134466666665

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.75  E-value=1.5e-08  Score=83.27  Aligned_cols=118  Identities=23%  Similarity=0.254  Sum_probs=79.5

Q ss_pred             CeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchhcCC
Q 009534          326 PSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAP  405 (532)
Q Consensus       326 ~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~  405 (532)
                      |.|+++++ .++.++.  +..+++|++|++++. .++.+|....           .+++|++|++++|.++.+|.+..++
T Consensus         1 R~L~Ls~n-~l~~l~~--l~~l~~L~~L~ls~N-~l~~lp~~~~-----------~l~~L~~L~l~~N~i~~l~~~~~l~   65 (124)
T d1dcea3           1 RVLHLAHK-DLTVLCH--LEQLLLVTHLDLSHN-RLRALPPALA-----------ALRCLEVLQASDNALENVDGVANLP   65 (124)
T ss_dssp             SEEECTTS-CCSSCCC--GGGGTTCCEEECCSS-CCCCCCGGGG-----------GCTTCCEEECCSSCCCCCGGGTTCS
T ss_pred             CEEEcCCC-CCCCCcc--cccCCCCCEEECCCC-ccCcchhhhh-----------hhhcccccccccccccccCcccccc
Confidence            46777774 4777753  777888888888774 5676765432           4888888888888888888788888


Q ss_pred             CcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCC----CcCCCCccEE
Q 009534          406 NLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPR----ALPFPHLKEL  471 (532)
Q Consensus       406 ~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~----~~~~p~L~~L  471 (532)
                      +|++|+++++. +..++.           ...+..+++|+.|++.+.+ +..++..    ...+|+|+.|
T Consensus        66 ~L~~L~l~~N~-i~~~~~-----------~~~l~~~~~L~~L~l~~N~-i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          66 RLQELLLCNNR-LQQSAA-----------IQPLVSCPRLVLLNLQGNS-LCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             SCCEEECCSSC-CCSSST-----------TGGGGGCTTCCEEECTTSG-GGGSSSCTTHHHHHCTTCSEE
T ss_pred             ccCeEECCCCc-cCCCCC-----------chhhcCCCCCCEEECCCCc-CCcCccHHHHHHHHCcCcceE
Confidence            88888887653 555532           1246667888888887643 3333321    1236666665

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.66  E-value=1.3e-07  Score=87.02  Aligned_cols=185  Identities=13%  Similarity=0.095  Sum_probs=99.2

Q ss_pred             ccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCcc
Q 009534          294 KHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEV  373 (532)
Q Consensus       294 ~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~  373 (532)
                      ++++.|+++-..   +..++..  ....+++|++|+++++.....++...+..+++++.+.+..+..+..++.....   
T Consensus        29 ~~l~~L~Ls~n~---i~~l~~~--~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~---  100 (242)
T d1xwdc1          29 RNAIELRFVLTK---LRVIQKG--AFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQ---  100 (242)
T ss_dssp             SCCSEEEEESCC---CCEECTT--TTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEE---
T ss_pred             CCCCEEECcCCc---CCccChh--Hhhccchhhhhhhccccccceeecccccccccccccccccccccccccccccc---
Confidence            367777754222   2333321  11235678888888876666666666777788888888777777766655544   


Q ss_pred             ccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeec--cccccccccccccccCc---------C---cccCcccc
Q 009534          374 KRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMY--DCRCLEEIISLEKLGEV---------P---SEEMQNLI  439 (532)
Q Consensus       374 ~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~--~c~~l~~i~~~~~~~~~---------~---~~~~~~~~  439 (532)
                             ++++|++|.+.+|+++..+....+++++.+...  +...+..+....-..-.         .   ...+....
T Consensus       101 -------~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~  173 (242)
T d1xwdc1         101 -------NLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAF  173 (242)
T ss_dssp             -------CCTTCCEEEEESCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTTT
T ss_pred             -------ccccccccccchhhhcccccccccccccccccccccccccccccccccccccccceeeecccccccccccccc
Confidence                   688999999998877776655555555555432  22233333321000000         0   00001112


Q ss_pred             cccccceeeccccccccccCCCC-cCCCCccEEeecCCCCCCCCCCCCCCCCCcee
Q 009534          440 PFARLERLSLGGLENLRSIYPRA-LPFPHLKELHVTLCPKLKKLPFDCTSGHERKL  494 (532)
Q Consensus       440 ~~~~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~  494 (532)
                      ..++++.+....+.+++++|... ..+++|+.|++++++ ++.+|......+..|+
T Consensus       174 ~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~N~-l~~l~~~~~~~l~~L~  228 (242)
T d1xwdc1         174 NGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTR-IHSLPSYGLENLKKLR  228 (242)
T ss_dssp             TTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTTSC-CCCCCSSSCTTCCEEE
T ss_pred             cchhhhccccccccccccccHHHhcCCCCCCEEECCCCc-CCccCHHHHcCCcccc
Confidence            23444444444445566665533 346666666666653 5666554332234443

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.64  E-value=4e-08  Score=96.76  Aligned_cols=154  Identities=18%  Similarity=0.268  Sum_probs=106.7

Q ss_pred             hhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecc
Q 009534          289 ELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       289 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      .....++|+.|+++  ++. +..++    ....+++|+.|+++++. +..++.  +..+++|+.|+++++. +..++. .
T Consensus       214 ~~~~~~~L~~L~l~--~n~-l~~~~----~l~~l~~L~~L~l~~n~-l~~~~~--~~~~~~L~~L~l~~~~-l~~~~~-~  281 (384)
T d2omza2         214 PLGILTNLDELSLN--GNQ-LKDIG----TLASLTNLTDLDLANNQ-ISNLAP--LSGLTKLTELKLGANQ-ISNISP-L  281 (384)
T ss_dssp             GGGGCTTCCEEECC--SSC-CCCCG----GGGGCTTCSEEECCSSC-CCCCGG--GTTCTTCSEEECCSSC-CCCCGG-G
T ss_pred             cccccCCCCEEECC--CCC-CCCcc----hhhcccccchhccccCc-cCCCCc--ccccccCCEeeccCcc-cCCCCc-c
Confidence            34556788888854  331 22221    12245779999999975 666653  6778899999998763 443332 1


Q ss_pred             cCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceee
Q 009534          369 AGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLS  448 (532)
Q Consensus       369 ~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~  448 (532)
                                 ..++.++.+.+..|.+..++.+..+++++.|+++++ +++.++              .+..+++|++|+
T Consensus       282 -----------~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n-~l~~l~--------------~l~~l~~L~~L~  335 (384)
T d2omza2         282 -----------AGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN-NISDIS--------------PVSSLTKLQRLF  335 (384)
T ss_dssp             -----------TTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSS-CCSCCG--------------GGGGCTTCCEEE
T ss_pred             -----------ccccccccccccccccccccccchhcccCeEECCCC-CCCCCc--------------ccccCCCCCEEE
Confidence                       247788888888887777777788888888888766 355553              356688888888


Q ss_pred             ccccccccccCCCCcCCCCccEEeecCCCCCCCCC
Q 009534          449 LGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       449 l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      +++| +++.++ .+..+|+|++|++++| +++.+|
T Consensus       336 L~~n-~l~~l~-~l~~l~~L~~L~l~~N-~l~~l~  367 (384)
T d2omza2         336 FANN-KVSDVS-SLANLTNINWLSAGHN-QISDLT  367 (384)
T ss_dssp             CCSS-CCCCCG-GGGGCTTCCEEECCSS-CCCBCG
T ss_pred             CCCC-CCCCCh-hHcCCCCCCEEECCCC-cCCCCh
Confidence            8887 577765 4667888888888876 566664

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.61  E-value=1.5e-08  Score=87.50  Aligned_cols=113  Identities=15%  Similarity=0.127  Sum_probs=88.6

Q ss_pred             ccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccc
Q 009534          344 LASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIIS  423 (532)
Q Consensus       344 l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~  423 (532)
                      +.++.+|+.|+++++ .+..++. ...          .+++|++|++++|.++.++.+..+++|++|++++|. +..++.
T Consensus        14 ~~n~~~lr~L~L~~n-~I~~i~~-~~~----------~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~-i~~l~~   80 (162)
T d1a9na_          14 YTNAVRDRELDLRGY-KIPVIEN-LGA----------TLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNR-ICRIGE   80 (162)
T ss_dssp             EECTTSCEEEECTTS-CCCSCCC-GGG----------GTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSC-CCEECS
T ss_pred             ccCcCcCcEEECCCC-CCCccCc-ccc----------ccccCCEEECCCCCCCccCCcccCcchhhhhccccc-ccCCCc
Confidence            556678999999987 5666643 222          589999999999999998888999999999999876 777765


Q ss_pred             cccccCcCcccCcccccccccceeeccccccccccCC--CCcCCCCccEEeecCCCCCCCCC
Q 009534          424 LEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP--RALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       424 ~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~--~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                                  ..+..+++|+.|++.++ ++++++.  ....+|+|+.|++.+|| +..+|
T Consensus        81 ------------~~~~~l~~L~~L~L~~N-~i~~~~~l~~l~~l~~L~~L~l~~N~-i~~~~  128 (162)
T d1a9na_          81 ------------GLDQALPDLTELILTNN-SLVELGDLDPLASLKSLTYLCILRNP-VTNKK  128 (162)
T ss_dssp             ------------CHHHHCTTCCEEECCSC-CCCCGGGGGGGGGCTTCCEEECCSSG-GGGST
T ss_pred             ------------cccccccccccceeccc-cccccccccccccccccchhhcCCCc-ccccc
Confidence                        13456899999999986 4666653  35678999999999986 34444

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=98.58  E-value=1e-07  Score=93.70  Aligned_cols=172  Identities=20%  Similarity=0.269  Sum_probs=116.7

Q ss_pred             hhhhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeee
Q 009534          287 VEELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEI  366 (532)
Q Consensus       287 ~~~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~  366 (532)
                      ......+++++.+.++-..+..   +..    ...+++|++|+++++. ++.++.  +..+++|+.|.+.++. +..++.
T Consensus       190 ~~~~~~l~~~~~l~l~~n~i~~---~~~----~~~~~~L~~L~l~~n~-l~~~~~--l~~l~~L~~L~l~~n~-l~~~~~  258 (384)
T d2omza2         190 ISVLAKLTNLESLIATNNQISD---ITP----LGILTNLDELSLNGNQ-LKDIGT--LASLTNLTDLDLANNQ-ISNLAP  258 (384)
T ss_dssp             CGGGGGCTTCSEEECCSSCCCC---CGG----GGGCTTCCEEECCSSC-CCCCGG--GGGCTTCSEEECCSSC-CCCCGG
T ss_pred             ccccccccccceeeccCCccCC---CCc----ccccCCCCEEECCCCC-CCCcch--hhcccccchhccccCc-cCCCCc
Confidence            3445566777777743222211   111    1224669999998864 666653  6778899999998873 554432


Q ss_pred             cccCCccccccccCCCCCccEEEEeCCccccCCchhcCCCcceeeeccccccccccccccccCcCcccCcccccccccce
Q 009534          367 DYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLER  446 (532)
Q Consensus       367 ~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~  446 (532)
                       .           ..+++|++|+++++.+..++.+..++.++.+.+..+. +..+.              .+..+++++.
T Consensus       259 -~-----------~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~-l~~~~--------------~~~~~~~l~~  311 (384)
T d2omza2         259 -L-----------SGLTKLTELKLGANQISNISPLAGLTALTNLELNENQ-LEDIS--------------PISNLKNLTY  311 (384)
T ss_dssp             -G-----------TTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSC-CSCCG--------------GGGGCTTCSE
T ss_pred             -c-----------cccccCCEeeccCcccCCCCccccccccccccccccc-ccccc--------------ccchhcccCe
Confidence             2           2578999999988888888778888889998887654 44332              3566788999


Q ss_pred             eeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecchh
Q 009534          447 LSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEE  501 (532)
Q Consensus       447 L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~  501 (532)
                      |+++++ +++.++. +..+|+|++|++++| +++.+|. ... +++|+..++...
T Consensus       312 L~ls~n-~l~~l~~-l~~l~~L~~L~L~~n-~l~~l~~-l~~-l~~L~~L~l~~N  361 (384)
T d2omza2         312 LTLYFN-NISDISP-VSSLTKLQRLFFANN-KVSDVSS-LAN-LTNINWLSAGHN  361 (384)
T ss_dssp             EECCSS-CCSCCGG-GGGCTTCCEEECCSS-CCCCCGG-GGG-CTTCCEEECCSS
T ss_pred             EECCCC-CCCCCcc-cccCCCCCEEECCCC-CCCCChh-HcC-CCCCCEEECCCC
Confidence            999876 6676653 667899999999998 6777763 222 467777766543

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=98.57  E-value=4.9e-08  Score=93.69  Aligned_cols=194  Identities=14%  Similarity=0.068  Sum_probs=99.4

Q ss_pred             chhhhcCCccCceeeEEeccchhHH-HhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCccee
Q 009534          286 LVEELLGLKHLNVLTITLHSFAALQ-RLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEM  364 (532)
Q Consensus       286 ~~~~l~~L~~L~~L~i~~~~~~~l~-~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l  364 (532)
                      +..++..|++|++|++.  ++..+. .+|   .....|++|++|+|+++. +..++...+..+++|+.+++.++.....+
T Consensus        68 lp~~l~~L~~L~~L~Ls--~~N~l~g~iP---~~i~~L~~L~~L~Ls~N~-l~~~~~~~~~~~~~L~~l~l~~N~~~~~~  141 (313)
T d1ogqa_          68 IPSSLANLPYLNFLYIG--GINNLVGPIP---PAIAKLTQLHYLYITHTN-VSGAIPDFLSQIKTLVTLDFSYNALSGTL  141 (313)
T ss_dssp             CCGGGGGCTTCSEEEEE--EETTEESCCC---GGGGGCTTCSEEEEEEEC-CEEECCGGGGGCTTCCEEECCSSEEESCC
T ss_pred             CChHHhcCccccccccc--cccccccccc---cccccccccchhhhcccc-ccccccccccchhhhcccccccccccccC
Confidence            34567777777777743  222211 222   222345667777777754 45554444566667777777665443333


Q ss_pred             eecccCCccccccccCCCCCccEEEEeCCccc-cCCc-hhcCCCc-ceeeecccccccccccccccc-C----------c
Q 009534          365 EIDYAGGEVKRIRETHGFFSLHKVSIWGSKLR-HVTW-LILAPNL-KLIQMYDCRCLEEIISLEKLG-E----------V  430 (532)
Q Consensus       365 ~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~-~l~~-l~~l~~L-~~L~l~~c~~l~~i~~~~~~~-~----------~  430 (532)
                      |...           ..+++|+.+++++|.+. .+|. +..++++ +.+.+.++. +.......-.. .          .
T Consensus       142 p~~l-----------~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~-l~~~~~~~~~~l~~~~l~l~~~~~  209 (313)
T d1ogqa_         142 PPSI-----------SSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNR-LTGKIPPTFANLNLAFVDLSRNML  209 (313)
T ss_dssp             CGGG-----------GGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSE-EEEECCGGGGGCCCSEEECCSSEE
T ss_pred             chhh-----------ccCcccceeecccccccccccccccccccccccccccccc-cccccccccccccccccccccccc
Confidence            3322           24677777777777444 3443 4444444 445444322 22111100000 0          0


Q ss_pred             CcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCCCCCCCCceeEEecc
Q 009534          431 PSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQ  499 (532)
Q Consensus       431 ~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~  499 (532)
                      ....+.....+++|+.+++.++. +...+.....+++|+.|++++|.--..+|...... ++|+..+..
T Consensus       210 ~~~~~~~~~~~~~l~~l~~~~~~-l~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L-~~L~~L~Ls  276 (313)
T d1ogqa_         210 EGDASVLFGSDKNTQKIHLAKNS-LAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQL-KFLHSLNVS  276 (313)
T ss_dssp             EECCGGGCCTTSCCSEEECCSSE-ECCBGGGCCCCTTCCEEECCSSCCEECCCGGGGGC-TTCCEEECC
T ss_pred             ccccccccccccccccccccccc-ccccccccccccccccccCccCeecccCChHHhCC-CCCCEEECc
Confidence            00012244556777777777664 33333345667777777777764433677655443 555555444

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.53  E-value=2.9e-07  Score=86.89  Aligned_cols=161  Identities=16%  Similarity=0.155  Sum_probs=102.4

Q ss_pred             CCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCC---------------ccccccccCCCCCccEE
Q 009534          324 NTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGG---------------EVKRIRETHGFFSLHKV  388 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~---------------~~~~~~~~~~l~~L~~L  388 (532)
                      ++++|+|+++ .++.+|...+.++++|+.|++++. .+..++......               ....+.....+++|++|
T Consensus        33 ~~~~L~Ls~N-~i~~i~~~~f~~l~~L~~L~ls~n-~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L  110 (284)
T d1ozna_          33 ASQRIFLHGN-RISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTL  110 (284)
T ss_dssp             TCSEEECTTS-CCCEECTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEE
T ss_pred             CCCEEECcCC-cCCCCCHHHhhccccccccccccc-cccccccccccccccccccccccccccccccchhhcccccCCEE
Confidence            3667777764 366666655666777777776653 333333222110               00112234467888888


Q ss_pred             EEeCCccccCC--chhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCC-cCC
Q 009534          389 SIWGSKLRHVT--WLILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRA-LPF  465 (532)
Q Consensus       389 ~l~~c~L~~l~--~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~-~~~  465 (532)
                      ++.+|.+..++  ....+++|+.+++.+. .++.++.            ..+..+++|+.|++.++ +++.++... ..+
T Consensus       111 ~l~~n~~~~~~~~~~~~~~~L~~l~l~~N-~l~~i~~------------~~f~~~~~L~~L~l~~N-~l~~l~~~~f~~l  176 (284)
T d1ozna_         111 HLDRCGLQELGPGLFRGLAALQYLYLQDN-ALQALPD------------DTFRDLGNLTHLFLHGN-RISSVPERAFRGL  176 (284)
T ss_dssp             ECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCT------------TTTTTCTTCCEEECCSS-CCCEECTTTTTTC
T ss_pred             ecCCcccccccccccchhcccchhhhccc-cccccCh------------hHhccccchhhcccccC-cccccchhhhccc
Confidence            88888666543  2566788888888654 4666654            25677889999999987 688887644 468


Q ss_pred             CCccEEeecCCCCCCCCCCCCCCCCCceeEEecchh
Q 009534          466 PHLKELHVTLCPKLKKLPFDCTSGHERKLIIKGQEE  501 (532)
Q Consensus       466 p~L~~L~i~~C~~L~~lp~~~~~~l~~L~~~~~~~~  501 (532)
                      ++|+.+.+.++.-..-.|...... .+|...+....
T Consensus       177 ~~L~~l~l~~N~l~~i~~~~f~~l-~~L~~L~l~~N  211 (284)
T d1ozna_         177 HSLDRLLLHQNRVAHVHPHAFRDL-GRLMTLYLFAN  211 (284)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTC-TTCCEEECCSS
T ss_pred             cccchhhhhhccccccChhHhhhh-hhccccccccc
Confidence            999999999886554445544443 66666666543

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.46  E-value=2.1e-09  Score=96.31  Aligned_cols=78  Identities=15%  Similarity=0.202  Sum_probs=35.5

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL  401 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l  401 (532)
                      |++|++|+++++. ++.++.  +..+++|+.|+++++ .++.++. ...          .+++|+.|++++|.++.++.+
T Consensus        47 L~~L~~L~Ls~n~-I~~i~~--l~~l~~L~~L~Ls~N-~i~~i~~-~~~----------~~~~L~~L~l~~N~i~~l~~~  111 (198)
T d1m9la_          47 LKACKHLALSTNN-IEKISS--LSGMENLRILSLGRN-LIKKIEN-LDA----------VADTLEELWISYNQIASLSGI  111 (198)
T ss_dssp             TTTCCEEECSEEE-ESCCCC--HHHHTTCCEEECCEE-EECSCSS-HHH----------HHHHCCEEECSEEECCCHHHH
T ss_pred             ccccceeECcccC-CCCccc--ccCCccccChhhccc-ccccccc-ccc----------ccccccccccccccccccccc
Confidence            3445555555432 444431  445555555555544 2333321 100          133455555555555554444


Q ss_pred             hcCCCcceeeecc
Q 009534          402 ILAPNLKLIQMYD  414 (532)
Q Consensus       402 ~~l~~L~~L~l~~  414 (532)
                      ..+++|+.|++++
T Consensus       112 ~~l~~L~~L~L~~  124 (198)
T d1m9la_         112 EKLVNLRVLYMSN  124 (198)
T ss_dssp             HHHHHSSEEEESE
T ss_pred             ccccccccccccc
Confidence            5555555555544

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=8.2e-07  Score=81.36  Aligned_cols=176  Identities=15%  Similarity=0.146  Sum_probs=110.5

Q ss_pred             hhcCCccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecc
Q 009534          289 ELLGLKHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDY  368 (532)
Q Consensus       289 ~l~~L~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~  368 (532)
                      .+.++++|++|+++  .+.....++ .. ....+++++++.+..+..+..++...+..+++|+.|.+.++ .+...+...
T Consensus        48 ~f~~l~~L~~L~ls--~n~~~~~i~-~~-~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~-~l~~~~~~~  122 (242)
T d1xwdc1          48 AFSGFGDLEKIEIS--QNDVLEVIE-AD-VFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNT-GIKHLPDVH  122 (242)
T ss_dssp             TTTTCTTCCEEEEE--SCTTCCEEC-SS-SEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEESC-CCCSCCCCT
T ss_pred             Hhhccchhhhhhhc--cccccceee-cc-ccccccccccccccccccccccccccccccccccccccchh-hhccccccc
Confidence            46778999999965  332222111 11 12234678999988888888888777888999999999876 343332211


Q ss_pred             -cC-Cc-------------cccccccCCC-CCccEEEEeCCccccCCc-hhcCCCcceeeeccccccccccccccccCcC
Q 009534          369 -AG-GE-------------VKRIRETHGF-FSLHKVSIWGSKLRHVTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVP  431 (532)
Q Consensus       369 -~~-~~-------------~~~~~~~~~l-~~L~~L~l~~c~L~~l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~  431 (532)
                       .. ..             .........+ ..++.|++.++++..++. ....+++..+....+.++++++.        
T Consensus       123 ~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~~~~~~l~~~~~l~~n~l~~l~~--------  194 (242)
T d1xwdc1         123 KIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNLEELPN--------  194 (242)
T ss_dssp             TTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTTTTTCCEEEEECTTCTTCCCCCT--------
T ss_pred             ccccccccccccccccccccccccccccccccceeeecccccccccccccccchhhhccccccccccccccH--------
Confidence             10 00             0001111122 256667776666666543 33455666665556666777754        


Q ss_pred             cccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCC
Q 009534          432 SEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPF  484 (532)
Q Consensus       432 ~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~  484 (532)
                          ..+..+++|++|++.+. +++.+|.  ..|..|..|...++.+|+.+|-
T Consensus       195 ----~~f~~l~~L~~L~Ls~N-~l~~l~~--~~~~~l~~L~~l~~~~l~~lp~  240 (242)
T d1xwdc1         195 ----DVFHGASGPVILDISRT-RIHSLPS--YGLENLKKLRARSTYNLKKLPT  240 (242)
T ss_dssp             ----TTTTTSCCCSEEECTTS-CCCCCCS--SSCTTCCEEESSSEESSSCSCC
T ss_pred             ----HHhcCCCCCCEEECCCC-cCCccCH--HHHcCCcccccCcCCCCCcCCC
Confidence                35778999999999986 4888875  3466777777777788888874

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.43  E-value=4.1e-07  Score=80.50  Aligned_cols=121  Identities=17%  Similarity=0.199  Sum_probs=66.7

Q ss_pred             eEEEecCCCCCccccccccccccccceeeccccCcce-eeecccCCccccccccCCCCCccEEEEeCCccccCCc--hhc
Q 009534          327 SLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEE-MEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW--LIL  403 (532)
Q Consensus       327 ~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~-l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~--l~~  403 (532)
                      .++.++ .+++.+|.. ++  +++++|++++. .+.. ++.....          .+++|++|+++++.+..++.  +..
T Consensus        12 ~v~Cs~-~~L~~iP~~-lp--~~l~~L~Ls~N-~i~~~~~~~~f~----------~l~~L~~L~L~~N~i~~~~~~~~~~   76 (192)
T d1w8aa_          12 TVDCTG-RGLKEIPRD-IP--LHTTELLLNDN-ELGRISSDGLFG----------RLPHLVKLELKRNQLTGIEPNAFEG   76 (192)
T ss_dssp             EEECTT-SCCSSCCSC-CC--TTCSEEECCSC-CCCSBCCSCSGG----------GCTTCCEEECCSSCCCCBCTTTTTT
T ss_pred             EEEEeC-CCcCccCCC-CC--CCCCEEEeCCC-CCcccccccccC----------CCceEeeeecccccccccccccccc
Confidence            334333 345566543 33  36666666664 3322 2222222          46667777776665555433  555


Q ss_pred             CCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCC-cCCCCccEEeecCC
Q 009534          404 APNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRA-LPFPHLKELHVTLC  476 (532)
Q Consensus       404 l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~-~~~p~L~~L~i~~C  476 (532)
                      +++|++|+++++ .+..++.            ..+.++++|++|+|++. +++.++... ..+++|++|++.+.
T Consensus        77 ~~~L~~L~Ls~N-~l~~l~~------------~~F~~l~~L~~L~L~~N-~l~~i~~~~f~~l~~L~~l~L~~N  136 (192)
T d1w8aa_          77 ASHIQELQLGEN-KIKEISN------------KMFLGLHQLKTLNLYDN-QISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CTTCCEEECCSC-CCCEECS------------SSSTTCTTCCEEECCSS-CCCEECTTSSTTCTTCCEEECTTC
T ss_pred             ccccceeeeccc-cccccCH------------HHHhCCCcccccccCCc-cccccCHHHhcCCccccccccccc
Confidence            666777776554 3556544            24566667777777664 466665543 35666666666653

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.41  E-value=2.5e-07  Score=81.95  Aligned_cols=106  Identities=19%  Similarity=0.259  Sum_probs=82.5

Q ss_pred             cCCCeEEEecCCCCC-ccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          323 SNTPSLSLTNCRSLS-SLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~-~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      +++++|+|++.. +. .++...+..+++|+.|++.+. .+..++.+...          .+++|++|++++|+++.++. 
T Consensus        29 ~~l~~L~Ls~N~-i~~~~~~~~f~~l~~L~~L~L~~N-~i~~~~~~~~~----------~~~~L~~L~Ls~N~l~~l~~~   96 (192)
T d1w8aa_          29 LHTTELLLNDNE-LGRISSDGLFGRLPHLVKLELKRN-QLTGIEPNAFE----------GASHIQELQLGENKIKEISNK   96 (192)
T ss_dssp             TTCSEEECCSCC-CCSBCCSCSGGGCTTCCEEECCSS-CCCCBCTTTTT----------TCTTCCEEECCSCCCCEECSS
T ss_pred             CCCCEEEeCCCC-CcccccccccCCCceEeeeecccc-ccccccccccc----------cccccceeeeccccccccCHH
Confidence            459999999854 65 455666788999999999886 45556554444          68899999999998888765 


Q ss_pred             -hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccc
Q 009534          401 -LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLE  453 (532)
Q Consensus       401 -l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  453 (532)
                       +..+++|++|+|+++ .+..++.            ..+..+++|++|++.+.+
T Consensus        97 ~F~~l~~L~~L~L~~N-~l~~i~~------------~~f~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_          97 MFLGLHQLKTLNLYDN-QISCVMP------------GSFEHLNSLTSLNLASNP  137 (192)
T ss_dssp             SSTTCTTCCEEECCSS-CCCEECT------------TSSTTCTTCCEEECTTCC
T ss_pred             HHhCCCcccccccCCc-cccccCH------------HHhcCCcccccccccccc
Confidence             788999999999875 4788766            367788999999998754

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=98.38  E-value=2.7e-07  Score=88.36  Aligned_cols=173  Identities=12%  Similarity=-0.022  Sum_probs=107.5

Q ss_pred             cCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCC-ccccccccccccccceeeccccCcceeeecccCCcc
Q 009534          295 HLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLS-SLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEV  373 (532)
Q Consensus       295 ~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~-~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~  373 (532)
                      ++..|++.-........++   .....+++|++|+|++|+.+. .+|.. +.++++|++|+++++ .+..++.....   
T Consensus        51 ~v~~L~L~~~~l~g~~~lp---~~l~~L~~L~~L~Ls~~N~l~g~iP~~-i~~L~~L~~L~Ls~N-~l~~~~~~~~~---  122 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIP---SSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQLHYLYITHT-NVSGAIPDFLS---  122 (313)
T ss_dssp             CEEEEEEECCCCSSCEECC---GGGGGCTTCSEEEEEEETTEESCCCGG-GGGCTTCSEEEEEEE-CCEEECCGGGG---
T ss_pred             EEEEEECCCCCCCCCCCCC---hHHhcCccccccccccccccccccccc-cccccccchhhhccc-ccccccccccc---
Confidence            5666775432222211222   233346779999999887776 78765 899999999999997 45555544433   


Q ss_pred             ccccccCCCCCccEEEEeCC-ccccCCc-hhcCCCcceeeeccccccccccccccccCcC--------c----ccCcccc
Q 009534          374 KRIRETHGFFSLHKVSIWGS-KLRHVTW-LILAPNLKLIQMYDCRCLEEIISLEKLGEVP--------S----EEMQNLI  439 (532)
Q Consensus       374 ~~~~~~~~l~~L~~L~l~~c-~L~~l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~--------~----~~~~~~~  439 (532)
                             .+++|+++++.+| ....+|. +..+++|+.++++++.....++.........        +    ..+..+.
T Consensus       123 -------~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~  195 (313)
T d1ogqa_         123 -------QIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFA  195 (313)
T ss_dssp             -------GCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGG
T ss_pred             -------chhhhcccccccccccccCchhhccCcccceeecccccccccccccccccccccccccccccccccccccccc
Confidence                   6889999999999 5555654 8899999999998775433444311100000        0    0001111


Q ss_pred             cccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCC
Q 009534          440 PFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLP  483 (532)
Q Consensus       440 ~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp  483 (532)
                      . ..+..+++..+.....+|.....+++|+.+.+.+|.--..+|
T Consensus       196 ~-l~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~  238 (313)
T d1ogqa_         196 N-LNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG  238 (313)
T ss_dssp             G-CCCSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEECCBGG
T ss_pred             c-cccccccccccccccccccccccccccccccccccccccccc
Confidence            1 123345555555555556666778999999998886444444

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.28  E-value=3e-08  Score=88.59  Aligned_cols=124  Identities=13%  Similarity=0.204  Sum_probs=93.7

Q ss_pred             CCeEEEec-CCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCch-h
Q 009534          325 TPSLSLTN-CRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWL-I  402 (532)
Q Consensus       325 L~~L~l~~-c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l-~  402 (532)
                      ++.+.+.+ .+.++.++.+ +..+++|++|+++++ .++.++. .           ..+++|++|++++|.++.++.+ .
T Consensus        25 ~~~~~l~~~~~~i~~l~~s-l~~L~~L~~L~Ls~n-~I~~i~~-l-----------~~l~~L~~L~Ls~N~i~~i~~~~~   90 (198)
T d1m9la_          25 AEKVELHGMIPPIEKMDAT-LSTLKACKHLALSTN-NIEKISS-L-----------SGMENLRILSLGRNLIKKIENLDA   90 (198)
T ss_dssp             CSCEECCBCCTTCCCCHHH-HHHTTTCCEEECSEE-EESCCCC-H-----------HHHTTCCEEECCEEEECSCSSHHH
T ss_pred             cceeeeecccCchhhhhhH-HhcccccceeECccc-CCCCccc-c-----------cCCccccChhhccccccccccccc
Confidence            55666664 3456777654 888999999999986 5666532 2           2589999999999999998764 4


Q ss_pred             cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCC--CCcCCCCccEEeecCCCC
Q 009534          403 LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYP--RALPFPHLKELHVTLCPK  478 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~--~~~~~p~L~~L~i~~C~~  478 (532)
                      .+++|+.|+++++ .+..+.              .+..+++|+.|+++++ ++++++.  ....+|+|+.|+++++|-
T Consensus        91 ~~~~L~~L~l~~N-~i~~l~--------------~~~~l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L~~L~L~~N~l  152 (198)
T d1m9la_          91 VADTLEELWISYN-QIASLS--------------GIEKLVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             HHHHCCEEECSEE-ECCCHH--------------HHHHHHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSSHH
T ss_pred             ccccccccccccc-cccccc--------------cccccccccccccccc-hhccccccccccCCCccceeecCCCcc
Confidence            4678999999876 466653              4667899999999986 4555542  356799999999999763

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.26  E-value=2.5e-06  Score=82.24  Aligned_cols=40  Identities=23%  Similarity=0.248  Sum_probs=30.0

Q ss_pred             ccccceeeccccccccccCCCCcCCCCccEEeecCCCCCCCCCCC
Q 009534          441 FARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCPKLKKLPFD  485 (532)
Q Consensus       441 ~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~~L~~lp~~  485 (532)
                      +++|++|++++| +++++|.   .+++|+.|++++| +++.+|..
T Consensus       283 ~~~L~~L~Ls~N-~l~~lp~---~~~~L~~L~L~~N-~L~~l~~~  322 (353)
T d1jl5a_         283 PPSLEELNVSNN-KLIELPA---LPPRLERLIASFN-HLAEVPEL  322 (353)
T ss_dssp             CTTCCEEECCSS-CCSCCCC---CCTTCCEEECCSS-CCSCCCCC
T ss_pred             CCCCCEEECCCC-ccCcccc---ccCCCCEEECCCC-cCCccccc
Confidence            578999999887 5777764   3678888888776 57778764

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.14  E-value=2.8e-06  Score=72.22  Aligned_cols=16  Identities=31%  Similarity=0.328  Sum_probs=6.5

Q ss_pred             CCCccEEEEeCCcccc
Q 009534          382 FFSLHKVSIWGSKLRH  397 (532)
Q Consensus       382 l~~L~~L~l~~c~L~~  397 (532)
                      +++|+.|++++|+++.
T Consensus        55 l~~L~~L~Ls~N~l~~   70 (156)
T d2ifga3          55 LGELRNLTIVKSGLRF   70 (156)
T ss_dssp             CCCCSEEECCSSCCCE
T ss_pred             ccccCcceeeccccCC
Confidence            3444444444443333

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.03  E-value=5.4e-06  Score=67.36  Aligned_cols=97  Identities=20%  Similarity=0.218  Sum_probs=72.7

Q ss_pred             cceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-hhcCCCcceeeeccccccccccccccccC
Q 009534          351 EALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-LILAPNLKLIQMYDCRCLEEIISLEKLGE  429 (532)
Q Consensus       351 ~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-l~~l~~L~~L~l~~c~~l~~i~~~~~~~~  429 (532)
                      |.|++++. +++.++. .           ..+++|++|++++|.++.+|. +..+++|+.|+++++ .++.++       
T Consensus         1 R~L~Ls~n-~l~~l~~-l-----------~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N-~i~~l~-------   59 (124)
T d1dcea3           1 RVLHLAHK-DLTVLCH-L-----------EQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN-ALENVD-------   59 (124)
T ss_dssp             SEEECTTS-CCSSCCC-G-----------GGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS-CCCCCG-------
T ss_pred             CEEEcCCC-CCCCCcc-c-----------ccCCCCCEEECCCCccCcchhhhhhhhcccccccccc-cccccC-------
Confidence            45677764 5555542 2           358899999999999889875 788999999999874 466663       


Q ss_pred             cCcccCcccccccccceeeccccccccccCC--CCcCCCCccEEeecCC
Q 009534          430 VPSEEMQNLIPFARLERLSLGGLENLRSIYP--RALPFPHLKELHVTLC  476 (532)
Q Consensus       430 ~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~--~~~~~p~L~~L~i~~C  476 (532)
                             .+..+++|++|++.++ .+.+++.  ....+|+|+.|++++.
T Consensus        60 -------~~~~l~~L~~L~l~~N-~i~~~~~~~~l~~~~~L~~L~l~~N  100 (124)
T d1dcea3          60 -------GVANLPRLQELLLCNN-RLQQSAAIQPLVSCPRLVLLNLQGN  100 (124)
T ss_dssp             -------GGTTCSSCCEEECCSS-CCCSSSTTGGGGGCTTCCEEECTTS
T ss_pred             -------ccccccccCeEECCCC-ccCCCCCchhhcCCCCCCEEECCCC
Confidence                   4667899999999885 5666653  3567889999999874

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.01  E-value=4.7e-06  Score=70.76  Aligned_cols=83  Identities=18%  Similarity=0.192  Sum_probs=69.7

Q ss_pred             ccCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCc-
Q 009534          322 VSNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTW-  400 (532)
Q Consensus       322 l~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~-  400 (532)
                      +++|++|++.+.+.++.++...|.++++|+.|+++++ .++.++.+...          .+++|++|+|++|+++.+|. 
T Consensus        30 l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N-~l~~i~~~~f~----------~l~~L~~L~Ls~N~l~~l~~~   98 (156)
T d2ifga3          30 AENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFH----------FTPRLSRLNLSFNALESLSWK   98 (156)
T ss_dssp             CSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSS-CCCEECTTGGG----------SCSCCCEEECCSSCCSCCCST
T ss_pred             ccccCeeecCCCccccccCchhhccccccCcceeecc-ccCCccccccc----------ccccccceeccCCCCcccChh
Confidence            4679999998877899999888999999999999986 68888776554          68999999999999999876 


Q ss_pred             hhcCCCcceeeeccc
Q 009534          401 LILAPNLKLIQMYDC  415 (532)
Q Consensus       401 l~~l~~L~~L~l~~c  415 (532)
                      .....+|+.|+|++.
T Consensus        99 ~~~~~~l~~L~L~~N  113 (156)
T d2ifga3          99 TVQGLSLQELVLSGN  113 (156)
T ss_dssp             TTCSCCCCEEECCSS
T ss_pred             hhccccccccccCCC
Confidence            333457999999854

>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=98.00  E-value=3e-05  Score=71.62  Aligned_cols=98  Identities=15%  Similarity=0.100  Sum_probs=71.7

Q ss_pred             CcccccHHHHHHHHHHhcc------CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTE------EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESI  220 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i  220 (532)
                      ..++||+.+++.+.++|..      ...+.+-|+|+.|+|||++|+.+.+.. ..... ...+|+..........+...+
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l-~~~~~-~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KDKTT-ARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH-TTSCC-CEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH-hcccC-CcEEEecchhhhhhhhhhhhh
Confidence            4689999999999999853      245788899999999999999999988 32222 245677777778888888888


Q ss_pred             HHHhcCCCCCCCCCCHHHHHHHHHHHh
Q 009534          221 AKKIGLCNESWDSKSFDEKAQEIFKTM  247 (532)
Q Consensus       221 ~~~l~~~~~~~~~~~~~~~~~~l~~~L  247 (532)
                      ....+..... ...........+.+.+
T Consensus        94 ~~~~~~~~~~-~~~~~~~~~~~~~~~~  119 (276)
T d1fnna2          94 ARSLNIPFPR-RGLSRDEFLALLVEHL  119 (276)
T ss_dssp             HHHTTCCCCS-SCCCHHHHHHHHHHHH
T ss_pred             HHhhhhhhhh-hccchhHHHHHHHHHH
Confidence            8887664422 3445555555555544

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=97.69  E-value=9.8e-05  Score=70.49  Aligned_cols=116  Identities=19%  Similarity=0.168  Sum_probs=72.8

Q ss_pred             cCCCeEEEecCCCCCccccccccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchh
Q 009534          323 SNTPSLSLTNCRSLSSLSVLTLASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLI  402 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~~l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~  402 (532)
                      ++|++|++++ ..++.+|..    +.+|+.|++.++ .++.++.              -.++|++|++++|.+..+|...
T Consensus        58 ~~L~~L~Ls~-N~l~~lp~~----~~~L~~L~l~~n-~l~~l~~--------------lp~~L~~L~L~~n~l~~lp~~~  117 (353)
T d1jl5a_          58 PHLESLVASC-NSLTELPEL----PQSLKSLLVDNN-NLKALSD--------------LPPLLEYLGVSNNQLEKLPELQ  117 (353)
T ss_dssp             TTCSEEECCS-SCCSSCCCC----CTTCCEEECCSS-CCSCCCS--------------CCTTCCEEECCSSCCSSCCCCT
T ss_pred             CCCCEEECCC-CCCcccccc----hhhhhhhhhhhc-ccchhhh--------------hccccccccccccccccccchh
Confidence            4588888875 457777643    346777777764 3443321              1246888888888888887777


Q ss_pred             cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccccccccCCCCcCCCCccEEeecCCC
Q 009534          403 LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLRSIYPRALPFPHLKELHVTLCP  477 (532)
Q Consensus       403 ~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~~i~~~~~~~p~L~~L~i~~C~  477 (532)
                      .+++|+.|++.++. +...+.                ..+.+..+.+.++....  ......++.++.|.+.++.
T Consensus       118 ~l~~L~~L~l~~~~-~~~~~~----------------~~~~l~~l~~~~~~~~~--~~~l~~l~~l~~L~l~~n~  173 (353)
T d1jl5a_         118 NSSFLKIIDVDNNS-LKKLPD----------------LPPSLEFIAAGNNQLEE--LPELQNLPFLTAIYADNNS  173 (353)
T ss_dssp             TCTTCCEEECCSSC-CSCCCC----------------CCTTCCEEECCSSCCSS--CCCCTTCTTCCEEECCSSC
T ss_pred             hhccceeecccccc-cccccc----------------ccccccchhhccccccc--cccccccccceeccccccc
Confidence            78888888887654 233322                13455566655543221  2245567788888887764

>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=97.59  E-value=3.2e-05  Score=71.54  Aligned_cols=42  Identities=12%  Similarity=0.200  Sum_probs=37.0

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.|+||+++++++.+.    ..+++.|+|++|+|||+|++++.++.
T Consensus        12 ~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~   53 (283)
T d2fnaa2          12 KDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINEL   53 (283)
T ss_dssp             GGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHC
Confidence            6799999999998774    35788999999999999999998877

>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=97.53  E-value=0.00012  Score=67.71  Aligned_cols=100  Identities=15%  Similarity=0.073  Sum_probs=67.5

Q ss_pred             CcccccHHHHHHHHHHhcc----C----C-ceEEEEecCCCCcHHHHHHHHHHhccC---CCCCCCeEEEEEeCCCCCHH
Q 009534          147 PTVVGLQSTLDRVWRCLTE----E----P-VGIVGLYGMGGVGKTTLLTQINNSFLH---TPNNFDFVIWEVVSRDLQLG  214 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~----~----~-~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~v~~~~~~~  214 (532)
                      +.++||+.+++.|.+.+..    +    + ..++-++|+.|+|||++++.+.+...+   .........++.........
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   95 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY   95 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchh
Confidence            6789999999999887632    1    1 234566899999999999999987510   01112345677777777788


Q ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHh
Q 009534          215 KIQESIAKKIGLCNESWDSKSFDEKAQEIFKTM  247 (532)
Q Consensus       215 ~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L  247 (532)
                      .....+...+...... ...........+.+..
T Consensus        96 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~  127 (287)
T d1w5sa2          96 TILSLIVRQTGYPIQV-RGAPALDILKALVDNL  127 (287)
T ss_dssp             HHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHH
T ss_pred             hHHHHHhhhccccccc-ccchHHHHHHHHHHHH
Confidence            8888888877664422 3445555555555544

>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=97.40  E-value=8.6e-05  Score=64.39  Aligned_cols=46  Identities=24%  Similarity=0.368  Sum_probs=39.6

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||+++++++++.|...+-.=+-++|.+|||||+++..+..+.
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHH
Confidence            3579999999999999987655566799999999999998888766

>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=97.29  E-value=0.00013  Score=66.98  Aligned_cols=46  Identities=24%  Similarity=0.333  Sum_probs=39.2

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||+++++++++.|....-.-+-++|.+|+|||+++..+..+.
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri   63 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI   63 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHH
Confidence            3579999999999999987655555699999999999999888765

>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=97.17  E-value=0.00017  Score=64.89  Aligned_cols=46  Identities=22%  Similarity=0.306  Sum_probs=41.9

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++.+.+|+..++..-+-++|+.|+||||+|+.+.+..
T Consensus        24 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            4689999999999999998887778899999999999999998876

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.07  E-value=0.00028  Score=63.18  Aligned_cols=46  Identities=22%  Similarity=0.372  Sum_probs=41.0

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++||.++.++.+.+|+..+...-+-++|+.|+||||+|+.+.+..
T Consensus        14 ~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l   59 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI   59 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHh
Confidence            4689999999999999988776556699999999999999999887

>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=97.05  E-value=0.00021  Score=63.99  Aligned_cols=46  Identities=26%  Similarity=0.427  Sum_probs=41.1

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+.+|+.+++..-+-++|+.|+||||+|+.+.+..
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l   60 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   60 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHH
Confidence            4689999999999999998877667799999999999999998876

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.98  E-value=0.00022  Score=64.23  Aligned_cols=46  Identities=17%  Similarity=0.297  Sum_probs=40.8

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+..++..+...-+-++|+.|+||||+|+.+.++.
T Consensus        12 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHH
Confidence            4689999999999999988776667899999999999999998875

>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=96.87  E-value=0.00041  Score=62.64  Aligned_cols=46  Identities=28%  Similarity=0.435  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHhcc-----CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-----EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++||.++.++++..++..     ..++-+-++|+.|+||||+|+.+.+..
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999888888888742     234556689999999999999999887

>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=96.81  E-value=0.00048  Score=62.04  Aligned_cols=46  Identities=28%  Similarity=0.344  Sum_probs=38.2

Q ss_pred             CcccccHHHHHHHHHHhcc-----CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-----EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++||.++.++.+..++..     ...+-+-++|++|+||||+|+.+.+..
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc
Confidence            4689999999999888753     234456699999999999999999987

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.76  E-value=0.00073  Score=65.31  Aligned_cols=46  Identities=26%  Similarity=0.375  Sum_probs=36.3

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++||+++++++++.|...+-.-+-++|.+|||||+++..+..+.
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i   67 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHH
Confidence            3579999999999999976544444678999999999886655543

>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=96.75  E-value=0.00064  Score=61.75  Aligned_cols=63  Identities=19%  Similarity=0.195  Sum_probs=46.6

Q ss_pred             CcccccHHHHHHHHHHhcc-----------------CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          147 PTVVGLQSTLDRVWRCLTE-----------------EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      .+++|.++.++++.+++..                 ...+.+-++|+.|+||||+|+.+.++..     + ...++..+.
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~-----~-~~~~~~~~~   87 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG-----Y-DILEQNASD   87 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT-----C-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH-----h-hhhcccccc
Confidence            4689999999999998853                 1346788999999999999999999871     2 244555554


Q ss_pred             CCCHHH
Q 009534          210 DLQLGK  215 (532)
Q Consensus       210 ~~~~~~  215 (532)
                      ..+...
T Consensus        88 ~~~~~~   93 (253)
T d1sxja2          88 VRSKTL   93 (253)
T ss_dssp             CCCHHH
T ss_pred             chhhHH
Confidence            444433

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=96.54  E-value=0.00065  Score=58.14  Aligned_cols=25  Identities=24%  Similarity=0.456  Sum_probs=23.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++.|.|.|+.|+||||||+.+....
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999998876

>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=96.53  E-value=0.00059  Score=61.92  Aligned_cols=46  Identities=17%  Similarity=0.144  Sum_probs=37.7

Q ss_pred             CcccccHHHHHHHHHHhccC-CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEE-PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.+..++... ...-+-++|++|+||||+|+++.+..
T Consensus        11 ~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            46899998888888887654 34446699999999999999999875

>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=96.31  E-value=0.00088  Score=55.92  Aligned_cols=24  Identities=29%  Similarity=0.342  Sum_probs=21.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.|.+.|+.|+||||+|+.+..+.
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            467888999999999999999987

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.22  E-value=0.0013  Score=55.41  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=22.0

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|.|.|+.|+||||+|+.+....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            679999999999999999998776

>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=96.22  E-value=0.0012  Score=55.55  Aligned_cols=25  Identities=28%  Similarity=0.527  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|++|+|..|+|||||++++....
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998876

>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=96.17  E-value=0.0015  Score=53.99  Aligned_cols=24  Identities=25%  Similarity=0.246  Sum_probs=21.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|.|.|+.|+||||+|+.+..+.
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999987655

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.14  E-value=0.0021  Score=55.50  Aligned_cols=28  Identities=29%  Similarity=0.476  Sum_probs=25.0

Q ss_pred             cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          165 EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       165 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.-+|+|.|..|+||||+|+.+....
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3467799999999999999999998876

>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=96.11  E-value=0.0017  Score=55.09  Aligned_cols=37  Identities=14%  Similarity=-0.024  Sum_probs=28.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      +-.+|-++|+.|+||||+|+.+.....  ...++...++
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~--~~~~~~~~~~   41 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLN--QQGGRSVSLL   41 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH--HHCSSCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh--hcCCCchhhh
Confidence            357889999999999999999998872  1234555544

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=96.02  E-value=0.0011  Score=63.30  Aligned_cols=35  Identities=14%  Similarity=0.131  Sum_probs=20.0

Q ss_pred             cCCCeEEEecCCCCCccccc----cccccccccceeeccc
Q 009534          323 SNTPSLSLTNCRSLSSLSVL----TLASLRHLEALDMRYC  358 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~----~l~~l~~L~~L~i~~c  358 (532)
                      ++|+.|++++|. +......    .+...++|+.|.+++|
T Consensus        93 ~~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~L~~L~l~~n  131 (344)
T d2ca6a1          93 PKLHTVRLSDNA-FGPTAQEPLIDFLSKHTPLEHLYLHNN  131 (344)
T ss_dssp             TTCCEEECCSCC-CCTTTHHHHHHHHHHCTTCCEEECCSS
T ss_pred             CCcccccccccc-cccccccchhhhhcccccchheecccc
Confidence            557777777763 3322111    1344567777777765

>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=95.94  E-value=0.0043  Score=55.94  Aligned_cols=46  Identities=24%  Similarity=0.238  Sum_probs=35.4

Q ss_pred             CcccccHHHHHHHHHHh---cc---------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCL---TE---------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++.|.+.+   ..         ...+-+-++|+.|+|||++|+++.+..
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~   66 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   66 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc
Confidence            56899998777765543   22         124568899999999999999999877

>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=95.94  E-value=0.0018  Score=54.55  Aligned_cols=24  Identities=38%  Similarity=0.386  Sum_probs=21.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..|.|.|+.|+||||+|+.+..+.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999999887

>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=95.92  E-value=0.0017  Score=55.29  Aligned_cols=24  Identities=42%  Similarity=0.480  Sum_probs=22.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.|.|+|++|+|||||++.+....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            568999999999999999999887

>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=95.82  E-value=0.0036  Score=56.19  Aligned_cols=46  Identities=24%  Similarity=0.286  Sum_probs=39.9

Q ss_pred             CcccccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++.+.+++..++ .+.+-++|+.|+||||+|+.+.+..
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l   58 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   58 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHh
Confidence            468999999999999998776 4557799999999999999988776

>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=95.79  E-value=0.0039  Score=58.30  Aligned_cols=46  Identities=20%  Similarity=0.231  Sum_probs=37.2

Q ss_pred             CcccccHHHHHHHHHHhcc--------------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE--------------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+...+..              ...+-+-++|+.|+|||.||+++.+..
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc
Confidence            4679999999988776621              135667789999999999999999887

>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=95.76  E-value=0.0025  Score=54.36  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=22.6

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|.|.|+.|+||||+++.+....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998877

>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=95.72  E-value=0.003  Score=54.60  Aligned_cols=27  Identities=30%  Similarity=0.340  Sum_probs=24.7

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++.+|.|+|++|+||||+|+.+.++.
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            367899999999999999999999887

>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=95.69  E-value=0.0028  Score=53.26  Aligned_cols=22  Identities=27%  Similarity=0.501  Sum_probs=19.6

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++||.|+||||+|+.+..+.
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4456999999999999999987

>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=95.67  E-value=0.0027  Score=53.20  Aligned_cols=22  Identities=27%  Similarity=0.507  Sum_probs=20.5

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++||+|+||||+|+.+..+.
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6778999999999999999988

>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=95.64  E-value=0.0057  Score=55.60  Aligned_cols=43  Identities=26%  Similarity=0.230  Sum_probs=31.8

Q ss_pred             cccHHHHHHHHHHhcc-----CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          150 VGLQSTLDRVWRCLTE-----EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       150 vGr~~~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..++.+.+.++.+..     +.++.|-++|+.|+||||+|+.+.+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_           9 KQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhcccCCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4444555555555533     256778899999999999999999987

>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=95.64  E-value=0.0035  Score=52.61  Aligned_cols=26  Identities=23%  Similarity=0.455  Sum_probs=24.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+++.|.|+.|+||||+|+.+....
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999998877

>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=95.60  E-value=0.0039  Score=53.95  Aligned_cols=27  Identities=22%  Similarity=0.418  Sum_probs=24.9

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++.++|.|.|++|+||||+|+.+..+.
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999998877

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=95.59  E-value=0.006  Score=55.22  Aligned_cols=46  Identities=26%  Similarity=0.236  Sum_probs=36.2

Q ss_pred             CcccccHHHHHHHHHHh---cc---------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCL---TE---------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|.++.++++.+.+   ..         ...+-+-++|+.|+|||++|+.+.+..
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~   69 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA   69 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc
Confidence            57899998888876543   22         135567799999999999999999887

>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=95.58  E-value=0.0032  Score=52.85  Aligned_cols=24  Identities=25%  Similarity=0.293  Sum_probs=22.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++++|+|..|+|||||+.++....
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998877

>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=95.56  E-value=0.0063  Score=53.47  Aligned_cols=43  Identities=21%  Similarity=0.403  Sum_probs=33.7

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKI  224 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l  224 (532)
                      ..||+|-|++|+||||+|+.+.+++     .|.+.         +..++++.++...
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~-----gl~~i---------StGdLlR~~a~~~   45 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL-----QWHLL---------DSGAIYRVLALAA   45 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH-----TCEEE---------EHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh-----CCcEE---------CHHHHHHHHHHHH
Confidence            4699999999999999999999998     23332         5667888776643

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.53  E-value=0.0021  Score=53.99  Aligned_cols=79  Identities=24%  Similarity=0.275  Sum_probs=48.8

Q ss_pred             CCCCccEEEEeCCccccCCc----hhcCCCcceeeeccccccccccccccccCcCcccCcccccccccceeecccccccc
Q 009534          381 GFFSLHKVSIWGSKLRHVTW----LILAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLENLR  456 (532)
Q Consensus       381 ~l~~L~~L~l~~c~L~~l~~----l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~L~  456 (532)
                      .+++|++|++++|+++.++.    +..+++|+.|++++.. +.++...            ......+|+.|++.+.|--.
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~-i~~l~~l------------~~l~~~~L~~L~L~~Npl~~  129 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNE-LKSEREL------------DKIKGLKLEELWLDGNSLSD  129 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSC-CCCGGGH------------HHHTTCCCSSCCCTTSTTSS
T ss_pred             hCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCc-cccchhh------------hhhhccccceeecCCCCcCc
Confidence            47788888888887777643    4568888888887643 5555430            12234567888888765332


Q ss_pred             ccCCC-------CcCCCCccEEe
Q 009534          457 SIYPR-------ALPFPHLKELH  472 (532)
Q Consensus       457 ~i~~~-------~~~~p~L~~L~  472 (532)
                      .+...       ...+|+|+.|+
T Consensus       130 ~~~~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         130 TFRDQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             SSSSHHHHHHHHHTTSTTCCEET
T ss_pred             CcccchhHHHHHHHHCCCCCEEC
Confidence            22111       23467777665

>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=95.53  E-value=0.0038  Score=52.54  Aligned_cols=25  Identities=16%  Similarity=0.325  Sum_probs=23.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++|.|.|..|+||||+|+.+.+..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4789999999999999999999987

>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=0.0041  Score=52.28  Aligned_cols=26  Identities=23%  Similarity=0.249  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +...|.|.|+.|+||||+|+.+..+.
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            34568899999999999999999876

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.48  E-value=0.0013  Score=64.52  Aligned_cols=113  Identities=16%  Similarity=0.177  Sum_probs=65.3

Q ss_pred             CCCeEEEecCCCCCcccccc-ccccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccC--Cc
Q 009534          324 NTPSLSLTNCRSLSSLSVLT-LASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHV--TW  400 (532)
Q Consensus       324 ~L~~L~l~~c~~l~~l~~~~-l~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l--~~  400 (532)
                      +|++|++++ ..+....... ++.+++|+.|++.+|. +..-.....      ......+++|++|++++|.++..  ..
T Consensus         3 ~l~~ld~~~-~~i~~~~~~~l~~~l~~l~~L~L~~~~-i~~~~~~~l------~~~L~~~~~L~~LdLs~N~i~~~~~~~   74 (460)
T d1z7xw1           3 DIQSLDIQC-EELSDARWAELLPLLQQCQVVRLDDCG-LTEARCKDI------SSALRVNPALAELNLRSNELGDVGVHC   74 (460)
T ss_dssp             EEEEEEEES-CCCCHHHHHHHHHHHTTCSEEEEESSC-CCHHHHHHH------HHHHHTCTTCCEEECTTCCCHHHHHHH
T ss_pred             CCCEEEeeC-CcCChHHHHHHHHhCCCCCEEEeCCCC-CCHHHHHHH------HHHHhcCCCCCEEECcCCcCChHHHHH
Confidence            588888854 6677654332 4678888889998883 432111000      00012578888888888866531  11


Q ss_pred             hh-----cCCCcceeeeccccccccccccccccCcCcccCcccccccccceeeccccc
Q 009534          401 LI-----LAPNLKLIQMYDCRCLEEIISLEKLGEVPSEEMQNLIPFARLERLSLGGLE  453 (532)
Q Consensus       401 l~-----~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~  453 (532)
                      +.     ..++|++|++++|. +.+.....-        .+.+..+++|++|++.+++
T Consensus        75 l~~~l~~~~~~L~~L~L~~n~-it~~~~~~l--------~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          75 VLQGLQTPSCKIQKLSLQNCC-LTGAGCGVL--------SSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             HHHTTCSTTCCCCEEECTTSC-CBGGGHHHH--------HHHTTSCTTCCEEECCSSB
T ss_pred             HHHHHhcCCCCCCEEECCCCC-ccccccccc--------cchhhcccccccccccccc
Confidence            11     23468888888774 433211000        0145567888888887753

>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=95.44  E-value=0.0042  Score=54.19  Aligned_cols=25  Identities=16%  Similarity=0.323  Sum_probs=22.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+|.++|.+|+||||+|+++....
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998766

>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=95.39  E-value=0.0074  Score=54.28  Aligned_cols=46  Identities=24%  Similarity=0.209  Sum_probs=34.9

Q ss_pred             CcccccHHHHHHHHHHhc-------c---CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT-------E---EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~-------~---~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|..+.++.+++...       .   ...+-|-++|+.|+|||++|+++.+..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc
Confidence            457887777777666543       1   134557789999999999999999987

>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=95.36  E-value=0.0034  Score=53.98  Aligned_cols=26  Identities=31%  Similarity=0.381  Sum_probs=23.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-.+|-++|+.|+||||+|+.+....
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34688899999999999999998877

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=95.33  E-value=0.0043  Score=52.22  Aligned_cols=26  Identities=31%  Similarity=0.307  Sum_probs=22.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-++|.|.|+.|+||||+|+.+....
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999997654

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=95.28  E-value=0.002  Score=61.28  Aligned_cols=34  Identities=24%  Similarity=0.316  Sum_probs=17.9

Q ss_pred             CCCccEEEEeCCcccc------C-CchhcCCCcceeeeccc
Q 009534          382 FFSLHKVSIWGSKLRH------V-TWLILAPNLKLIQMYDC  415 (532)
Q Consensus       382 l~~L~~L~l~~c~L~~------l-~~l~~l~~L~~L~l~~c  415 (532)
                      +++|+.|++++|++..      + ..+..+++|+.|+++++
T Consensus       185 ~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N  225 (344)
T d2ca6a1         185 HRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDN  225 (344)
T ss_dssp             CTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSS
T ss_pred             hhhhcccccccccccccccccchhhhhcchhhhcccccccc
Confidence            4556666666664432      0 11445566666666554

>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=95.25  E-value=0.0041  Score=52.46  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=20.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.++|+.|+||||+|+.+.++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            45688999999999999999988

>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=95.22  E-value=0.028  Score=49.08  Aligned_cols=56  Identities=27%  Similarity=0.240  Sum_probs=36.1

Q ss_pred             cccccH-HH-HHHHHHHhccC--CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          148 TVVGLQ-ST-LDRVWRCLTEE--PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       148 ~~vGr~-~~-~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      -++|-. +. .+.+.++....  ....+-|+|..|+|||.|++++++...   .....+++++
T Consensus        12 F~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~---~~~~~~~~~~   71 (213)
T d1l8qa2          12 FIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAK---KRGYRVIYSS   71 (213)
T ss_dssp             CCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHH---HTTCCEEEEE
T ss_pred             ccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhc---cCccceEEec
Confidence            346643 22 33344444332  234477999999999999999999983   3344566664

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.10  E-value=0.0083  Score=54.38  Aligned_cols=46  Identities=26%  Similarity=0.367  Sum_probs=37.1

Q ss_pred             CcccccHHHHHHHHHHhc----c---------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT----E---------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++++.+.+.    .         ...+-+-++|+.|+|||++|+++.+..
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~   62 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET   62 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh
Confidence            468999999888888642    1         134567899999999999999999977

>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=95.09  E-value=0.0058  Score=52.12  Aligned_cols=24  Identities=33%  Similarity=0.545  Sum_probs=22.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|.|.|+.|+||||+++.+....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            688999999999999999998887

>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=95.09  E-value=0.0054  Score=51.84  Aligned_cols=22  Identities=41%  Similarity=0.594  Sum_probs=20.6

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|+|+.|+|||||++.+....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhcC
Confidence            7899999999999999999876

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=95.07  E-value=0.075  Score=45.97  Aligned_cols=88  Identities=14%  Similarity=0.199  Sum_probs=53.1

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHH--HHHHHHHHHhcCCCCC-CCCCCHHHHHHH
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLG--KIQESIAKKIGLCNES-WDSKSFDEKAQE  242 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~--~l~~~i~~~l~~~~~~-~~~~~~~~~~~~  242 (532)
                      +.+.||.++|+.|+||||.+-++.... .. .  ...+.+-....+.+.  +=++...+.++.+... ....+.......
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~-~~-~--g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~   82 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF-EQ-Q--GKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFD   82 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH-HT-T--TCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HH-C--CCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHH
Confidence            357899999999999999888887776 32 2  234555555666553  3344555666654321 133444444444


Q ss_pred             HHHH--hcCCcEEEehh
Q 009534          243 IFKT--MRNTKFLISNL  257 (532)
Q Consensus       243 l~~~--L~~kr~LlV~l  257 (532)
                      ..+.  .++..+++|..
T Consensus        83 ~~~~a~~~~~d~ilIDT   99 (211)
T d2qy9a2          83 AIQAAKARNIDVLIADT   99 (211)
T ss_dssp             HHHHHHHTTCSEEEECC
T ss_pred             HHHHHHHcCCCEEEecc
Confidence            3333  45667888833

>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=94.93  E-value=0.0074  Score=51.90  Aligned_cols=25  Identities=28%  Similarity=0.311  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+|.|.|++|+||||+|+.+.++.
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999887

>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=94.92  E-value=0.0067  Score=51.34  Aligned_cols=27  Identities=26%  Similarity=0.286  Sum_probs=23.3

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+..+|-++|+.|+||||+|+.+....
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            357899999999999999999887654

>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=94.90  E-value=0.0082  Score=52.52  Aligned_cols=25  Identities=20%  Similarity=0.328  Sum_probs=22.9

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-+|+|.|..|+||||+|+.+....
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999998876

>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=94.88  E-value=0.079  Score=48.76  Aligned_cols=80  Identities=11%  Similarity=-0.020  Sum_probs=47.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCC--CeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF--DFVIWEVVSRDLQLGKIQESIAKKIGLCNESWDSKSFDEKAQEIF  244 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F--~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~  244 (532)
                      .+-+|||.|..|+||||+|+.+.... .  ..+  ..+.-|+...-+-....+..  ..+..........+.+.+...+.
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL-~--~~~~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~  153 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALL-S--RWPEHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVS  153 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH-T--TSTTCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHH-h--hhcCCCceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHH
Confidence            57899999999999999999998877 2  222  23444554443322222221  11111111124567788887777


Q ss_pred             HHhcCCc
Q 009534          245 KTMRNTK  251 (532)
Q Consensus       245 ~~L~~kr  251 (532)
                      ....++.
T Consensus       154 ~lk~g~~  160 (308)
T d1sq5a_         154 DLKSGVP  160 (308)
T ss_dssp             HHTTTCS
T ss_pred             HHHcCCC
Confidence            7666654

>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=94.83  E-value=0.011  Score=53.85  Aligned_cols=37  Identities=22%  Similarity=0.371  Sum_probs=28.6

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeC
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVS  208 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~  208 (532)
                      +.|+|+|-||+||||+|-.+.....  +..+ .++-|+..
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA--~~G~-rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLH--AMGK-TIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--TTTC-CEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHH--hCCC-cEEEEecC
Confidence            6899999999999999999888884  2233 45666654

>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=94.53  E-value=0.013  Score=53.39  Aligned_cols=51  Identities=25%  Similarity=0.285  Sum_probs=37.1

Q ss_pred             HHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          156 LDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       156 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      +..+.+.+..++.+||.+.|-||+||||+|-.+..... .+ . ..+.-|+...
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA-~~-G-~rVllvD~Dp   58 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLA-DM-G-FDVHLTTSDP   58 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHH-HT-T-CCEEEEESCC
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHH-HC-C-CcEEEEeCCC
Confidence            45667777778899999999999999999888877663 11 2 2355565543

>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=94.50  E-value=0.02  Score=53.37  Aligned_cols=46  Identities=26%  Similarity=0.430  Sum_probs=38.3

Q ss_pred             CcccccHHHHHHHHHHhcc--------C-CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE--------E-PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--------~-~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.+...+..        + ...++-++|+.|+|||.||+.+..-.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            5789999999999887731        1 34578899999999999999998876

>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=94.47  E-value=0.01  Score=52.22  Aligned_cols=44  Identities=18%  Similarity=0.249  Sum_probs=33.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcC
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGL  226 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~  226 (532)
                      -+|+|-|++|+||||+|+.+..+.     .|.+   +      +..++++.++.....
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l-----g~~~---i------stGdl~R~~a~~~~~   47 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF-----GFTY---L------DTGAMYRAATYMALK   47 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH-----CCEE---E------EHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh-----CCcE---E------CHHHHHHHHHHHHHH
Confidence            368899999999999999999988     2322   2      566788877665443

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.46  E-value=0.0028  Score=62.15  Aligned_cols=111  Identities=17%  Similarity=0.230  Sum_probs=68.1

Q ss_pred             ccCceeeEEeccchhHHHhhcCCcccccccCCCeEEEecCCCCCccccc----cccccccccceeeccccCcceeeeccc
Q 009534          294 KHLNVLTITLHSFAALQRLLTYPSLQSIVSNTPSLSLTNCRSLSSLSVL----TLASLRHLEALDMRYCKDLEEMEIDYA  369 (532)
Q Consensus       294 ~~L~~L~i~~~~~~~l~~l~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~----~l~~l~~L~~L~i~~c~~L~~l~~~~~  369 (532)
                      .+|+.|+++-...... .+..   ....++++++|.|++|. ++.....    .+..+++|+.|+++++ .+.+......
T Consensus         2 ~~l~~ld~~~~~i~~~-~~~~---l~~~l~~l~~L~L~~~~-i~~~~~~~l~~~L~~~~~L~~LdLs~N-~i~~~~~~~l   75 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDA-RWAE---LLPLLQQCQVVRLDDCG-LTEARCKDISSALRVNPALAELNLRSN-ELGDVGVHCV   75 (460)
T ss_dssp             EEEEEEEEESCCCCHH-HHHH---HHHHHTTCSEEEEESSC-CCHHHHHHHHHHHHTCTTCCEEECTTC-CCHHHHHHHH
T ss_pred             CCCCEEEeeCCcCChH-HHHH---HHHhCCCCCEEEeCCCC-CCHHHHHHHHHHHhcCCCCCEEECcCC-cCChHHHHHH
Confidence            3678888764433221 1111   22245779999999995 6643321    2467889999999886 3432111000


Q ss_pred             CCcccccccc-CCCCCccEEEEeCCccccCC------chhcCCCcceeeecccc
Q 009534          370 GGEVKRIRET-HGFFSLHKVSIWGSKLRHVT------WLILAPNLKLIQMYDCR  416 (532)
Q Consensus       370 ~~~~~~~~~~-~~l~~L~~L~l~~c~L~~l~------~l~~l~~L~~L~l~~c~  416 (532)
                      .      ... ...++|++|++++|.++...      .+..+++|++|+++++.
T Consensus        76 ~------~~l~~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          76 L------QGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             H------HTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             H------HHHhcCCCCCCEEECCCCCccccccccccchhhcccccccccccccc
Confidence            0      000 12357999999999877632      25678999999998765

>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=94.44  E-value=0.0092  Score=51.11  Aligned_cols=25  Identities=24%  Similarity=0.178  Sum_probs=22.2

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..|.|.|+.|+||||+|+.+.++.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4467799999999999999998887

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.0031  Score=52.88  Aligned_cols=63  Identities=13%  Similarity=0.075  Sum_probs=41.6

Q ss_pred             cccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCccccCCchh--cCCCcceeeecccc
Q 009534          345 ASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRHVTWLI--LAPNLKLIQMYDCR  416 (532)
Q Consensus       345 ~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~l~~l~--~l~~L~~L~l~~c~  416 (532)
                      ..+++|++|+++++ .++.++.-..        ....+++|+.|++++|.++.++.+.  ...+|+.|++.+.+
T Consensus        62 ~~~~~L~~L~Ls~N-~i~~l~~~~~--------~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Np  126 (162)
T d1koha1          62 ENIPELLSLNLSNN-RLYRLDDMSS--------IVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNS  126 (162)
T ss_dssp             HHCTTCCCCCCCSS-CCCCCSGGGT--------HHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTST
T ss_pred             HhCCCCCEeeCCCc-cccCCchhHH--------HHhhCCcccccccccCccccchhhhhhhccccceeecCCCC
Confidence            45778888888875 4554432110        0125789999999999888876533  23568888888765

>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=94.36  E-value=0.012  Score=50.35  Aligned_cols=25  Identities=36%  Similarity=0.506  Sum_probs=21.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++| |.|++|+||||+|+.+..+.
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45666 78999999999999998877

>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=94.20  E-value=0.098  Score=45.13  Aligned_cols=88  Identities=13%  Similarity=0.153  Sum_probs=52.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCH--HHHHHHHHHHhcCCCCCC-CCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQL--GKIQESIAKKIGLCNESW-DSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~--~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~l  243 (532)
                      +.+||.++|+.|+||||.+-++.... .. .. ..+.-++. ..+.+  .+-++...+.++.+.... ...+........
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~-~~-~g-~kV~lit~-Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~   84 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYY-KG-KG-RRPLLVAA-DTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRV   84 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH-HH-TT-CCEEEEEC-CSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH-HH-CC-CcEEEEec-ccccchHHHHHHHHHHhcCCccccccccchhhHHHHHH
Confidence            46899999999999999888877766 32 22 34555554 33333  344445566666543211 334444443322


Q ss_pred             --HHHhcCCcEEEehhh
Q 009534          244 --FKTMRNTKFLISNLK  258 (532)
Q Consensus       244 --~~~L~~kr~LlV~lA  258 (532)
                        ...+.+..+++|..|
T Consensus        85 ~~~~~~~~~d~vlIDTa  101 (207)
T d1ls1a2          85 EEKARLEARDLILVDTA  101 (207)
T ss_dssp             HHHHHHHTCCEEEEECC
T ss_pred             HHHHhhccCcceeeccc
Confidence              345678888888433

>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=94.16  E-value=0.01  Score=53.99  Aligned_cols=46  Identities=28%  Similarity=0.362  Sum_probs=34.9

Q ss_pred             CcccccHHHHHHHHHHhc----c---------CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT----E---------EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+++|.++.++.|.+.+.    .         ...+-|-++|+.|+|||++|+++.+..
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh
Confidence            457888877666666542    1         134567799999999999999999987

>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=94.15  E-value=0.023  Score=49.43  Aligned_cols=30  Identities=23%  Similarity=0.369  Sum_probs=25.9

Q ss_pred             hccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          163 LTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       163 L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ....+..+|-+.|+.|+||||+|+.+....
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            445578899999999999999999998765

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.13  E-value=0.0099  Score=51.18  Aligned_cols=26  Identities=31%  Similarity=0.192  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..+|+|-|..|+||||+++.+.+..
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            56789999999999999999987665

>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=94.11  E-value=0.07  Score=46.09  Aligned_cols=89  Identities=16%  Similarity=0.165  Sum_probs=56.0

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhcCCCCC-CCCCCHHHHHHHH
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR-DLQLGKIQESIAKKIGLCNES-WDSKSFDEKAQEI  243 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~~~~l  243 (532)
                      ++.++|.++|+.|+||||.+-++.... ... . ..+..|+... .....+=++..++.++.+... ....+........
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~-~~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   80 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYY-QNL-G-KKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDA   80 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHH-HTT-T-CCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HHC-C-CcEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHHHHHH
Confidence            357899999999999999988887766 322 2 3567776543 335555566677777664321 1334444444332


Q ss_pred             --HHHhcCCcEEEehh
Q 009534          244 --FKTMRNTKFLISNL  257 (532)
Q Consensus       244 --~~~L~~kr~LlV~l  257 (532)
                        ....++..+++|.-
T Consensus        81 ~~~~~~~~~d~ilIDT   96 (207)
T d1okkd2          81 VQAMKARGYDLLFVDT   96 (207)
T ss_dssp             HHHHHHHTCSEEEECC
T ss_pred             HHHHHHCCCCEEEcCc
Confidence              23456788999833

>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=94.10  E-value=0.022  Score=49.64  Aligned_cols=24  Identities=21%  Similarity=0.387  Sum_probs=22.3

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..|+|.|+.|+||||+++.+.+..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999987

>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=94.05  E-value=0.013  Score=49.52  Aligned_cols=22  Identities=32%  Similarity=0.520  Sum_probs=20.4

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|.|++|+||||+|+.+..+.
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            6799999999999999998877

>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=94.04  E-value=0.014  Score=49.96  Aligned_cols=22  Identities=32%  Similarity=0.439  Sum_probs=19.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQI  188 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v  188 (532)
                      ++-+|||.|+.|+||||+|+.+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4678999999999999999977

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=94.01  E-value=0.027  Score=52.60  Aligned_cols=60  Identities=18%  Similarity=0.119  Sum_probs=32.7

Q ss_pred             HHHHHHhc--cCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE--eCCCCCHHHHHHH
Q 009534          157 DRVWRCLT--EEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV--VSRDLQLGKIQES  219 (532)
Q Consensus       157 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~--v~~~~~~~~l~~~  219 (532)
                      .++++.+.  .++..+|+|.|.+|+|||||...+.... .  ..-..++-+.  .+..++-..++.+
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~-~--~~g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL-I--REGLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH-H--HTTCCEEEEEECCC-----------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH-H--hcCCceeeecCCCceeeeccccccc
Confidence            34444443  2478999999999999999999987766 2  2222343343  3444444444443

>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=94.00  E-value=0.016  Score=51.61  Aligned_cols=26  Identities=19%  Similarity=0.336  Sum_probs=23.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.|+|-|+-|+||||+++.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999998876

>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=94.00  E-value=0.015  Score=49.93  Aligned_cols=26  Identities=27%  Similarity=0.312  Sum_probs=23.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.++|.|.|++|+||||+|+.+..+.
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999999999999999998876

>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=93.94  E-value=0.014  Score=49.42  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=20.5

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|.|++|+||||+|+.+.+..
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            6788999999999999999887

>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=93.82  E-value=0.015  Score=49.94  Aligned_cols=23  Identities=39%  Similarity=0.505  Sum_probs=20.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|+|+.|+|||||++.+....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            47799999999999999998876

>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=93.81  E-value=0.017  Score=49.56  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=21.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.|.|.|++|+||||+|+.+..+.
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHH
Confidence            356688999999999999999887

>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=93.78  E-value=0.017  Score=49.38  Aligned_cols=24  Identities=29%  Similarity=0.506  Sum_probs=21.6

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.|.|+|+.|+|||||++.+..+.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            457899999999999999998886

>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=93.70  E-value=0.015  Score=54.67  Aligned_cols=44  Identities=20%  Similarity=0.317  Sum_probs=32.7

Q ss_pred             CcccccHHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHH
Q 009534          147 PTVVGLQSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      ++++|.+..+..+.-.....+.+=+-+.|..|+||||+|+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            57899998777655444332334467899999999999999864

>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=93.69  E-value=0.019  Score=48.79  Aligned_cols=24  Identities=29%  Similarity=0.451  Sum_probs=21.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|.|+|+.|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578899999999999999998876

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=93.69  E-value=0.042  Score=51.17  Aligned_cols=37  Identities=22%  Similarity=0.361  Sum_probs=29.1

Q ss_pred             HHHHHHHhc--cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          156 LDRVWRCLT--EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       156 ~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++++.+.  .++..+|+|.|++|+|||||..++....
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            444555543  3478999999999999999999988765

>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=93.64  E-value=0.019  Score=48.67  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=21.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|.|.|++|+||||+|+.+..+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36789999999999999999987

>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=93.29  E-value=0.025  Score=47.89  Aligned_cols=24  Identities=21%  Similarity=0.360  Sum_probs=21.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.|.|+|+.|+|||||++.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999998776

>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=93.20  E-value=0.2  Score=43.30  Aligned_cols=90  Identities=18%  Similarity=0.176  Sum_probs=52.7

Q ss_pred             CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC-CHHHHHHHHHHHhcCCCCCC-CCCCHHHHHHH-
Q 009534          166 EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL-QLGKIQESIAKKIGLCNESW-DSKSFDEKAQE-  242 (532)
Q Consensus       166 ~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~-~~~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~-  242 (532)
                      .++.||.++|+.|+||||.+-++.... ..++  ..+..|+..... ...+=++..++.++.+.... ...+....... 
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~-~~~~--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   85 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMF-VDEG--KSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA   85 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH-HHTT--CCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HHCC--CceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHHH
Confidence            367899999999999999877777666 2222  456666654322 23334445555665432111 23344443332 


Q ss_pred             -HHHHhcCCcEEEehhh
Q 009534          243 -IFKTMRNTKFLISNLK  258 (532)
Q Consensus       243 -l~~~L~~kr~LlV~lA  258 (532)
                       .....++..++||.-|
T Consensus        86 ~~~~~~~~~d~ilIDTa  102 (213)
T d1vmaa2          86 VAHALARNKDVVIIDTA  102 (213)
T ss_dssp             HHHHHHTTCSEEEEEEC
T ss_pred             HHHHHHcCCCEEEEecc
Confidence             2334568888999443

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=93.17  E-value=0.048  Score=49.80  Aligned_cols=49  Identities=18%  Similarity=0.247  Sum_probs=34.2

Q ss_pred             cCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHH
Q 009534          165 EEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKI  216 (532)
Q Consensus       165 ~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l  216 (532)
                      +..+++|-+.|-||+||||+|-.+..... .++  ..++-|+.....++..+
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA-~~G--~rVLlvD~Dp~~~l~~~   53 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLA-EQG--KRVLLVSTDPASNVGQV   53 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHH-HTT--CCEEEEECCTTCCHHHH
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHH-HCC--CCEEEEeCCCCCCHHHH
Confidence            34578888999999999999998887773 111  34666766554454443

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.05  E-value=0.028  Score=48.52  Aligned_cols=26  Identities=38%  Similarity=0.589  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            45689999999999999999998755

>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=93.04  E-value=0.025  Score=47.86  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=19.7

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|.|+.|+||||+|+.+....
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            4477999999999999999887

>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=93.04  E-value=0.092  Score=45.41  Aligned_cols=86  Identities=15%  Similarity=0.069  Sum_probs=44.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC-CHHHHHHHHHHHhcCCCCCC-CCCCHHHHHHH--
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL-QLGKIQESIAKKIGLCNESW-DSKSFDEKAQE--  242 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~-~~~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~--  242 (532)
                      .+.||.++|+.|+||||.+-++.... .. ... .+..|+..... ...+=++..++.++.+.... ...+.......  
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~-~~-~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a~   87 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFY-KK-KGF-KVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGV   87 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHH-HH-TTC-CEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH-HH-CCC-ceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHHH
Confidence            58999999999999999877777666 32 222 45666653322 22333344555555543111 23333332222  


Q ss_pred             HHHHhcCCcEEEe
Q 009534          243 IFKTMRNTKFLIS  255 (532)
Q Consensus       243 l~~~L~~kr~LlV  255 (532)
                      ......+..+++|
T Consensus        88 ~~~~~~~~d~IlI  100 (211)
T d1j8yf2          88 EKFLSEKMEIIIV  100 (211)
T ss_dssp             HHHHHTTCSEEEE
T ss_pred             HHhhccCCceEEE
Confidence            2234577888888

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.03  E-value=0.17  Score=45.38  Aligned_cols=78  Identities=17%  Similarity=0.174  Sum_probs=53.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCC---CCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESW---DSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l  243 (532)
                      .-+++-|+|..|+||||+|..+.... .  ..-..++||+.-..++.+.     +++++.+.+..   ...+.++..+.+
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~-q--~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~  130 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANA-Q--AAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIA  130 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHH-H--HTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHH-h--cCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHH
Confidence            46789999999999999998777655 2  2334689999988888765     45556654331   445666666655


Q ss_pred             HHHhcCCcE
Q 009534          244 FKTMRNTKF  252 (532)
Q Consensus       244 ~~~L~~kr~  252 (532)
                      ....+.+++
T Consensus       131 ~~l~~~~~~  139 (269)
T d1mo6a1         131 DMLIRSGAL  139 (269)
T ss_dssp             HHHHHTTCE
T ss_pred             HHHHhcCCC
Confidence            555555543

>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=92.98  E-value=0.024  Score=47.78  Aligned_cols=22  Identities=27%  Similarity=0.265  Sum_probs=20.3

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|.|+.|+||||+|+.+..+.
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            6689999999999999999887

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.91  E-value=0.017  Score=51.23  Aligned_cols=25  Identities=16%  Similarity=0.290  Sum_probs=22.5

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -+.|+|-|+.|+||||+|+.+....
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999987765

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=92.90  E-value=0.12  Score=46.58  Aligned_cols=76  Identities=17%  Similarity=0.170  Sum_probs=53.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCC---CCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESW---DSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l  243 (532)
                      .-+++-|+|..|+|||++|..+.-.. ...+  ..++|++....++..     +++.++.+.+..   ...+.++..+.+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~a-qk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQA-QKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH-HHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHH-HhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            45799999999999999999987766 2222  468999988888875     566777654332   455666666655


Q ss_pred             HHHhcCC
Q 009534          244 FKTMRNT  250 (532)
Q Consensus       244 ~~~L~~k  250 (532)
                      ....+..
T Consensus       128 ~~l~~~~  134 (268)
T d1xp8a1         128 ELLVRSG  134 (268)
T ss_dssp             HHHHTTT
T ss_pred             HHHHhcC
Confidence            5555443

>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=92.80  E-value=0.05  Score=50.51  Aligned_cols=46  Identities=28%  Similarity=0.466  Sum_probs=37.3

Q ss_pred             CcccccHHHHHHHHHHhcc-------C--CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLTE-------E--PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..++|.++.++.|.+.+..       .  ...++.++|+.|+|||.+|+.+....
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            3679999999998887632       1  24478899999999999999998876

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=92.70  E-value=0.027  Score=51.69  Aligned_cols=38  Identities=21%  Similarity=0.295  Sum_probs=27.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      +.|+|.|-||+||||+|..+.....  +..+ .++-|+...
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA--~~G~-rVLlID~Dp   40 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALA--EMGK-KVMIVGCDP   40 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--HTTC-CEEEEEECS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH--HCCC-CEEEEecCC
Confidence            6788999999999999998877663  1222 466666544

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=92.65  E-value=0.032  Score=49.37  Aligned_cols=23  Identities=39%  Similarity=0.537  Sum_probs=21.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ||.|.|+.|+|||||..++.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            78999999999999999998765

>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=92.63  E-value=0.082  Score=45.94  Aligned_cols=26  Identities=19%  Similarity=0.250  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-+.|+|-|+-|+||||+++.+.+..
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHH
Confidence            34689999999999999999999887

>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=92.60  E-value=0.064  Score=46.42  Aligned_cols=42  Identities=10%  Similarity=0.216  Sum_probs=35.0

Q ss_pred             ccHHHHHHHHHHhccCC-ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          151 GLQSTLDRVWRCLTEEP-VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       151 Gr~~~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+...+++.+.+..++ .+.+-++|+.|+||||+|+.+....
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            45667888888888776 4568999999999999999988866

>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=92.57  E-value=0.071  Score=46.08  Aligned_cols=36  Identities=17%  Similarity=0.271  Sum_probs=26.7

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      +.|+|-|+.|+||||+++.+.+.. + ...+..+.+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L-~-~~g~~~~~~~~   38 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL-E-QLGIRDMVFTR   38 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH-H-HTTCCCEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-H-hCCCCeEEEec
Confidence            568999999999999999998876 2 22344454443

>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=92.51  E-value=0.034  Score=47.96  Aligned_cols=23  Identities=30%  Similarity=0.768  Sum_probs=21.2

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|+|-|+.|+||||+++.+.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998876

>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=92.47  E-value=0.061  Score=50.96  Aligned_cols=46  Identities=20%  Similarity=0.207  Sum_probs=35.7

Q ss_pred             CcccccHHHHHHHHHHhc------------------------------cCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          147 PTVVGLQSTLDRVWRCLT------------------------------EEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~------------------------------~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+||.++.++.+..++.                              +....-+-.+|+.|||||.||+.+....
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            468999999888876652                              1134557888999999999999997654

>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=92.44  E-value=0.052  Score=47.93  Aligned_cols=33  Identities=21%  Similarity=0.150  Sum_probs=26.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      -+++|+|+.|.|||||.+.+..-.    ..-.+.+|+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~----~p~~G~I~~   57 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV----KPDRGEVRL   57 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC----CCCceEEEE
Confidence            478899999999999999998866    334566766

>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=92.20  E-value=0.13  Score=46.58  Aligned_cols=82  Identities=11%  Similarity=-0.002  Sum_probs=46.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCC-CeEEEEEeCCCCCHHHHHHHHHHHhcCC-----CCCCCCCCHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF-DFVIWEVVSRDLQLGKIQESIAKKIGLC-----NESWDSKSFDEKA  240 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F-~~~~wv~v~~~~~~~~l~~~i~~~l~~~-----~~~~~~~~~~~~~  240 (532)
                      .+-+|||-|..|+||||||..+..... .+..+ ..++-++...-+-...=...+.+.....     .......+.+-+.
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~-~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~  104 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLM-EKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQ  104 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH-HHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHH-HHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHH
Confidence            466999999999999999998876652 11112 2355555444332222233444443111     1112566777666


Q ss_pred             HHHHHHhcC
Q 009534          241 QEIFKTMRN  249 (532)
Q Consensus       241 ~~l~~~L~~  249 (532)
                      ..+.+...+
T Consensus       105 ~~l~~l~~~  113 (286)
T d1odfa_         105 EVLNTIFNN  113 (286)
T ss_dssp             HHHHHHTC-
T ss_pred             HHHHHHHhh
Confidence            666665544

>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=92.17  E-value=0.039  Score=48.91  Aligned_cols=26  Identities=35%  Similarity=0.295  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-.+++|+|+.|.|||||++.++.-.
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34689999999999999999998755

>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=92.16  E-value=0.05  Score=47.82  Aligned_cols=36  Identities=22%  Similarity=0.216  Sum_probs=27.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEV  206 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~  206 (532)
                      +-.+++|+|+.|.|||||.+.+..-.    ..-.+.+++.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~----~p~sG~I~~~   65 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLD----KPTEGEVYID   65 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEET
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCC----CCCcceeEEC
Confidence            45689999999999999999886654    2335666663

>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=92.02  E-value=0.48  Score=40.21  Aligned_cols=38  Identities=8%  Similarity=-0.015  Sum_probs=32.6

Q ss_pred             HHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          155 TLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       155 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +++.+.+++..+...-+-++|..|+||||+|..+.+..
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i   39 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYV   39 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            45667777777788999999999999999999988766

>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=91.90  E-value=0.045  Score=44.63  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.4

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|+|..|+|||||.+++..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999987665

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=91.82  E-value=0.047  Score=47.23  Aligned_cols=24  Identities=17%  Similarity=0.281  Sum_probs=21.9

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|.|+|+.|+|||||.+.+..+.
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578899999999999999998876

>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=91.79  E-value=0.044  Score=45.03  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=20.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|..|+|||||.+++.++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37799999999999999987765

>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=91.78  E-value=0.057  Score=48.25  Aligned_cols=35  Identities=23%  Similarity=0.327  Sum_probs=27.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||++.+..-.    ..-.+.+++
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~----~p~~G~I~i   73 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLY----QPTGGQLLL   73 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhccc----CCCcCEEEE
Confidence            45789999999999999999997765    334566665

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=91.70  E-value=0.058  Score=48.36  Aligned_cols=35  Identities=26%  Similarity=0.267  Sum_probs=27.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      +-.+++|+|+.|.|||||++.+..-.    ..-.+.+++
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl~----~p~~G~I~~   61 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFLE----KPSEGAIIV   61 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc----cCCCCCEEE
Confidence            45689999999999999999997644    333566655

>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=91.59  E-value=0.049  Score=47.94  Aligned_cols=26  Identities=35%  Similarity=0.351  Sum_probs=22.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-.+++|+|+.|.|||||.+.+..-.
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            45689999999999999999997655

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.58  E-value=0.061  Score=47.08  Aligned_cols=37  Identities=22%  Similarity=0.219  Sum_probs=29.4

Q ss_pred             eEEEEe-cCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeC
Q 009534          169 GIVGLY-GMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVS  208 (532)
Q Consensus       169 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~  208 (532)
                      ++|+|+ |-||+||||+|..+.....   ..-..++.|+..
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la---~~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALA---QLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHH---HTTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHH---hCCCCEEEEeCC
Confidence            789998 8999999999999888773   223467888764

>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=91.51  E-value=0.071  Score=47.52  Aligned_cols=44  Identities=18%  Similarity=0.139  Sum_probs=33.8

Q ss_pred             ccccHHHHHHHHHHhcc--CCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          149 VVGLQSTLDRVWRCLTE--EPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       149 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +||....++++.+.+..  ..-.-|-|.|..|+|||++|+.++...
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            67877777777777653  223346788999999999999998764

>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=91.49  E-value=0.051  Score=48.05  Aligned_cols=26  Identities=35%  Similarity=0.313  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-.+++|+|+.|.|||||.+.+..-.
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45689999999999999999997765

>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=91.38  E-value=0.052  Score=46.27  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=22.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      ++..|+|+|..|+|||||...+.+.
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcCC
Confidence            5667999999999999999999864

>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=91.35  E-value=0.042  Score=48.64  Aligned_cols=26  Identities=35%  Similarity=0.456  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-.+++|+|+.|.|||||++.++.-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            35789999999999999999997765

>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=91.33  E-value=0.089  Score=43.70  Aligned_cols=34  Identities=32%  Similarity=0.577  Sum_probs=24.9

Q ss_pred             HHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHh
Q 009534          157 DRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       157 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      .++..++..... -|.|+|.+|+|||||..++-..
T Consensus         5 ~~~~~~~~~k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCeE-EEEEECCCCCCHHHHHHHHhcC
Confidence            345555544444 4669999999999999988665

>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=91.26  E-value=0.068  Score=47.80  Aligned_cols=35  Identities=26%  Similarity=0.260  Sum_probs=26.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|..|.|||||++.+..-.    ..-.+.+.+
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~----~p~~G~I~i   74 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY----DIDEGHILM   74 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT----CCSEEEEEE
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc----CCCccEEEE
Confidence            45689999999999999999996654    223455555

>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=91.18  E-value=0.054  Score=48.09  Aligned_cols=35  Identities=23%  Similarity=0.297  Sum_probs=26.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-..++|+|..|.|||||++.+..-.    ..-.+.+.+
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~----~p~~G~I~i   62 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY----IPENGQVLI   62 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC----CCCCCEEEE
Confidence            35689999999999999999997765    223455554

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=91.16  E-value=0.054  Score=46.92  Aligned_cols=20  Identities=40%  Similarity=0.433  Sum_probs=18.0

Q ss_pred             eEEEEecCCCCcHHHHHHHH
Q 009534          169 GIVGLYGMGGVGKTTLLTQI  188 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v  188 (532)
                      .+|||+|+.|.||||.|+.+
T Consensus         4 ~iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHH
Confidence            38999999999999999865

>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=91.06  E-value=0.1  Score=49.30  Aligned_cols=26  Identities=23%  Similarity=0.047  Sum_probs=24.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+.+.++|++|+|||++|+.+.+..
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            56789999999999999999999988

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=91.04  E-value=0.1  Score=45.93  Aligned_cols=40  Identities=23%  Similarity=0.196  Sum_probs=33.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~  209 (532)
                      .-.++-|+|.+|+|||++|..+.....   .+...++|++...
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~---~~~~~~~~is~e~   64 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENAC---ANKERAILFAYEE   64 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHH---TTTCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH---HhccccceeeccC
Confidence            567899999999999999999988873   5667788887654

>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=90.98  E-value=0.056  Score=49.21  Aligned_cols=26  Identities=31%  Similarity=0.436  Sum_probs=23.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|.|||||++.+..-.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            45789999999999999999998765

>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=90.94  E-value=0.19  Score=40.98  Aligned_cols=26  Identities=35%  Similarity=0.300  Sum_probs=23.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .--+|...|.=|+||||++|.+....
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            45689999999999999999999887

>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=90.84  E-value=0.063  Score=44.27  Aligned_cols=23  Identities=26%  Similarity=0.228  Sum_probs=19.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|.+|+|||||...+.+..
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37799999999999999987654

>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=90.82  E-value=0.29  Score=42.97  Aligned_cols=50  Identities=24%  Similarity=0.349  Sum_probs=36.6

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCC----CCCCeEEEEEeCCCCCHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTP----NNFDFVIWEVVSRDLQLGKIQ  217 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~----~~F~~~~wv~v~~~~~~~~l~  217 (532)
                      .-+++-|.|.+|+||||+|..+.... ..+    ......+|+......+...+.
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMV-QLPPEEGGLNGSVIWIDTENTFRPERIR   88 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT-TSCGGGTSCSCEEEEEESSSCCCHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHh-hchHHhcCCCceEEEEeccchhHHHHHH
Confidence            46799999999999999999987765 211    123567888877776665443

>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=90.80  E-value=0.064  Score=47.60  Aligned_cols=26  Identities=27%  Similarity=0.589  Sum_probs=22.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-..++|+|+.|.|||||++.+..-.
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            45789999999999999999986544

>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=90.68  E-value=0.057  Score=47.39  Aligned_cols=35  Identities=23%  Similarity=0.076  Sum_probs=27.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .--+++|+|+.|.|||||.+.+..-.    ..-.+.+++
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~----~p~sG~I~~   59 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH----VPDSGRILL   59 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc----CCCCCEEEE
Confidence            45689999999999999999998765    223455555

>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=90.59  E-value=0.069  Score=44.15  Aligned_cols=23  Identities=35%  Similarity=0.362  Sum_probs=19.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|.+|+|||+|++++.+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37789999999999999987653

>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=90.46  E-value=0.071  Score=44.43  Aligned_cols=22  Identities=36%  Similarity=0.452  Sum_probs=19.2

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|+|..|+|||||+.++.+..
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHhcCC
Confidence            6789999999999999977653

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=90.42  E-value=0.037  Score=50.39  Aligned_cols=26  Identities=23%  Similarity=0.446  Sum_probs=19.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..||+|.|..|.||||+|+.+.+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999876655

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=90.42  E-value=0.07  Score=46.02  Aligned_cols=20  Identities=50%  Similarity=0.544  Sum_probs=18.2

Q ss_pred             eEEEEecCCCCcHHHHHHHH
Q 009534          169 GIVGLYGMGGVGKTTLLTQI  188 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v  188 (532)
                      -+|||+|.-|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999866

>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=90.40  E-value=0.069  Score=47.26  Aligned_cols=26  Identities=42%  Similarity=0.519  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-.+++|+|+.|.|||||.+.+..-.
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999997765

>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=90.38  E-value=0.073  Score=44.40  Aligned_cols=24  Identities=33%  Similarity=0.614  Sum_probs=21.6

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      +..|+|+|..|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            567899999999999999999864

>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=90.35  E-value=0.071  Score=47.27  Aligned_cols=26  Identities=42%  Similarity=0.492  Sum_probs=23.1

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-.+++|+|+.|.|||||.+.+..-.
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45689999999999999999998765

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=90.31  E-value=0.072  Score=44.26  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHh
Q 009534          170 IVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      .|+|+|..|+|||||.+++...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998754

>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=90.24  E-value=0.076  Score=43.76  Aligned_cols=22  Identities=23%  Similarity=0.508  Sum_probs=18.9

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||+..+.+..
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999877643

>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=90.08  E-value=0.086  Score=44.10  Aligned_cols=25  Identities=36%  Similarity=0.514  Sum_probs=22.0

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ...|+|+|..|+|||||.+++....
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~~   29 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGVK   29 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4579999999999999999998753

>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=90.07  E-value=0.1  Score=46.60  Aligned_cols=35  Identities=20%  Similarity=0.246  Sum_probs=27.4

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEE
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWE  205 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv  205 (532)
                      .-.+++|+|+.|.|||||++.+..-.    ..-.+.+++
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~----~p~~G~I~~   63 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFL----KADEGRVYF   63 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS----CCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCC----cCCCcEEEE
Confidence            34689999999999999999998876    223456655

>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=90.00  E-value=0.078  Score=43.64  Aligned_cols=22  Identities=32%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||+|++++.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987644

>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=89.98  E-value=0.076  Score=43.71  Aligned_cols=22  Identities=32%  Similarity=0.520  Sum_probs=18.9

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|+|.+|+|||||.+.+.+..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHcCCC
Confidence            6799999999999999986543

>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=89.92  E-value=0.084  Score=43.75  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=19.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHh
Q 009534          170 IVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -|.++|..|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999988765

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=89.90  E-value=0.095  Score=46.23  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=21.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++|+|.|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999997765

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.78  E-value=0.087  Score=43.52  Aligned_cols=22  Identities=32%  Similarity=0.481  Sum_probs=19.4

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||.+++.+..
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987654

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {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: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=89.77  E-value=0.094  Score=45.91  Aligned_cols=37  Identities=24%  Similarity=0.291  Sum_probs=28.4

Q ss_pred             eEEEEe-cCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeC
Q 009534          169 GIVGLY-GMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVS  208 (532)
Q Consensus       169 ~vi~I~-G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~  208 (532)
                      ++|+|+ +-||+||||+|..+.....   ..-..++-|+..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la---~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALG---DRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH---HTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH---hCCCCEEEEeCC
Confidence            689999 7799999999999988773   222357777654

>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=89.76  E-value=0.08  Score=43.91  Aligned_cols=22  Identities=36%  Similarity=0.756  Sum_probs=19.0

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|.+|+|||||...+.+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999887643

>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=89.70  E-value=0.084  Score=43.82  Aligned_cols=23  Identities=35%  Similarity=0.572  Sum_probs=20.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|.+|+|||||.+.+.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988754

>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=89.50  E-value=0.094  Score=43.27  Aligned_cols=23  Identities=39%  Similarity=0.528  Sum_probs=19.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|-.|+|||||..++.+..
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47889999999999999987754

>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=89.49  E-value=0.095  Score=43.42  Aligned_cols=23  Identities=26%  Similarity=0.371  Sum_probs=19.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|..|+|||||+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36899999999999999987554

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=89.48  E-value=0.33  Score=43.36  Aligned_cols=81  Identities=19%  Similarity=0.154  Sum_probs=52.5

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCCCHHHHHHHHHHHhcCCCCCC---CCCCHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDLQLGKIQESIAKKIGLCNESW---DSKSFDEKAQEI  243 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l  243 (532)
                      .-+++-|+|..|+||||+|-.+.....   ..=..++|++....++...     ++.++.+.+..   ...+.++..+.+
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q---~~g~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHH---cCCCEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCCHHHHHHHH
Confidence            457999999999999999999877762   2234679999888887643     55666643321   344555555544


Q ss_pred             HHHhcC--CcEEEe
Q 009534          244 FKTMRN--TKFLIS  255 (532)
Q Consensus       244 ~~~L~~--kr~LlV  255 (532)
                      ....+.  .++++|
T Consensus       125 ~~l~~~~~~~liVi  138 (263)
T d1u94a1         125 DALARSGAVDVIVV  138 (263)
T ss_dssp             HHHHHHTCCSEEEE
T ss_pred             HHHHhcCCCCEEEE
Confidence            444432  344444

>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=89.47  E-value=0.095  Score=43.30  Aligned_cols=23  Identities=39%  Similarity=0.442  Sum_probs=19.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|.+|+|||+|..++.+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999987644

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.40  E-value=0.089  Score=43.58  Aligned_cols=23  Identities=35%  Similarity=0.359  Sum_probs=19.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|..|+|||+|++.+.+..
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEEECCCCcCHHHHHHHHhCCc
Confidence            37789999999999999886543

>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=89.31  E-value=0.14  Score=42.46  Aligned_cols=25  Identities=32%  Similarity=0.563  Sum_probs=20.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      +..-|.++|.+|+|||||..++...
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4455779999999999999887443

>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=89.24  E-value=0.1  Score=43.41  Aligned_cols=23  Identities=39%  Similarity=0.486  Sum_probs=19.5

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|.+|+|||||...+.+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            37899999999999999976543

>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=89.22  E-value=0.1  Score=43.19  Aligned_cols=22  Identities=27%  Similarity=0.610  Sum_probs=19.6

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||+|.+.+.+..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5789999999999999988765

>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=89.20  E-value=0.096  Score=43.61  Aligned_cols=23  Identities=39%  Similarity=0.576  Sum_probs=19.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|..|+|||+|...+.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47799999999999999987654

>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=89.18  E-value=0.12  Score=47.66  Aligned_cols=24  Identities=33%  Similarity=0.612  Sum_probs=21.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .++-++|++|+|||.+|+.+....
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHHh
Confidence            456668999999999999999987

>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=89.14  E-value=0.07  Score=47.16  Aligned_cols=26  Identities=31%  Similarity=0.365  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-.+++|+|+.|.|||||.+.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            34689999999999999999997754

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.08  E-value=0.23  Score=43.38  Aligned_cols=47  Identities=15%  Similarity=0.139  Sum_probs=33.2

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCC----CCCeEEEEEeCCCCCHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPN----NFDFVIWEVVSRDLQLG  214 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~v~~~~~~~  214 (532)
                      .-+++-|.|.+|+||||+|..+.... ....    .-..++|++....++..
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~   83 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTC-QIPLDIGGGEGKCLYIDTEGTFRPV   83 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTT-TSCTTTTCCSCEEEEEESSSCCCGG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHh-hhhhhhccCCceEEEEeecchHHHH
Confidence            46799999999999999998876544 1111    12467888876665543

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.02  E-value=0.1  Score=43.41  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=19.5

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|..|+|||||+.++....
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~~   29 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEKK   29 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999976543

>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=89.01  E-value=0.092  Score=44.23  Aligned_cols=23  Identities=35%  Similarity=0.408  Sum_probs=19.5

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|..|+|||||+..+.+..
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~~   29 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDNK   29 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            37789999999999999887643

>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=89.00  E-value=0.084  Score=46.49  Aligned_cols=25  Identities=36%  Similarity=0.533  Sum_probs=22.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHh
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      .-.+++|+|..|.|||||.+.+..-
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3568999999999999999999873

>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=88.94  E-value=0.11  Score=44.38  Aligned_cols=24  Identities=29%  Similarity=0.315  Sum_probs=21.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..|.|+|.+|+|||||..++.+..
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468999999999999999998763

>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=88.90  E-value=0.1  Score=42.95  Aligned_cols=22  Identities=36%  Similarity=0.504  Sum_probs=19.3

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||...+.+..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999987654

>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=88.89  E-value=0.095  Score=43.57  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=19.4

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHh
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      --|.++|.+|+|||||..++.+.
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999988553

>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=88.89  E-value=0.11  Score=42.07  Aligned_cols=23  Identities=35%  Similarity=0.486  Sum_probs=20.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|.+|+|||||...+-+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987654

>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=88.82  E-value=0.079  Score=44.41  Aligned_cols=21  Identities=38%  Similarity=0.695  Sum_probs=19.0

Q ss_pred             EEEecCCCCcHHHHHHHHHHh
Q 009534          171 VGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~  191 (532)
                      |+|+|..|+|||||..++.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998653

>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=88.71  E-value=0.12  Score=43.11  Aligned_cols=23  Identities=39%  Similarity=0.535  Sum_probs=19.8

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|..|+|||||+..+.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~~   28 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRNE   28 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999886653

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.68  E-value=0.56  Score=40.90  Aligned_cols=49  Identities=14%  Similarity=0.088  Sum_probs=35.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccC---CCCCCCeEEEEEeCCCCCHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLH---TPNNFDFVIWEVVSRDLQLGK  215 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~---~~~~F~~~~wv~v~~~~~~~~  215 (532)
                      .-+++-|.|..|+|||++|.++......   ....+..+.|+.....+....
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDR   87 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHH
Confidence            4679999999999999999998765421   123456788888777666443

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.55  E-value=0.12  Score=42.60  Aligned_cols=22  Identities=36%  Similarity=0.611  Sum_probs=19.3

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||+|...+....
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6789999999999999987654

>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=88.55  E-value=0.12  Score=44.21  Aligned_cols=24  Identities=25%  Similarity=0.296  Sum_probs=20.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-|.|+|.+|+|||||..++....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            358999999999999999987754

>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=88.49  E-value=0.12  Score=42.68  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=20.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-|.|+|..|+|||||...+.+..
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            457889999999999999976543

>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=88.45  E-value=0.12  Score=42.91  Aligned_cols=23  Identities=39%  Similarity=0.572  Sum_probs=19.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|..|+|||+|...+.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47889999999999999877653

>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=88.43  E-value=0.12  Score=42.65  Aligned_cols=22  Identities=36%  Similarity=0.605  Sum_probs=19.5

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||...+.+..
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7889999999999999987754

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.22  E-value=0.13  Score=42.47  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.1

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||+|...+.+..
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999877654

>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=88.21  E-value=0.1  Score=43.66  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.4

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|+|+|..|+|||||..++.++.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~   24 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKK   24 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999998754

>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=88.11  E-value=0.12  Score=43.85  Aligned_cols=23  Identities=35%  Similarity=0.505  Sum_probs=19.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|..|+|||||...+.+..
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            37899999999999999987654

>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=88.04  E-value=0.14  Score=42.07  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=18.9

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||..++....
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6689999999999999886654

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=88.03  E-value=0.12  Score=45.21  Aligned_cols=26  Identities=46%  Similarity=0.625  Sum_probs=22.8

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+.|..|.|.-|.|||||.+.+....
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            46788999999999999999998754

>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=88.01  E-value=0.098  Score=43.97  Aligned_cols=22  Identities=45%  Similarity=0.717  Sum_probs=19.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHh
Q 009534          170 IVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -|+|+|..++|||||..++.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998543

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.95  E-value=0.14  Score=42.32  Aligned_cols=22  Identities=45%  Similarity=0.613  Sum_probs=19.3

Q ss_pred             EEEEecCCCCcHHHHHHHHHHh
Q 009534          170 IVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -|.|+|.+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999987664

>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=87.95  E-value=0.13  Score=42.85  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=19.6

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|..|+|||+|...+.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999877654

>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=87.82  E-value=0.14  Score=42.90  Aligned_cols=23  Identities=35%  Similarity=0.403  Sum_probs=19.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.|+|..|+|||+|..++....
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47889999999999999877654

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=87.77  E-value=0.13  Score=43.06  Aligned_cols=23  Identities=39%  Similarity=0.460  Sum_probs=20.1

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|+|+|..|+|||||..++.+..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~~   32 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNKE   32 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTST
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            47999999999999999988653

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=87.66  E-value=0.15  Score=42.81  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=19.1

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|-+|+|||+|.+.+-...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            6789999999999999876554

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.52  E-value=0.14  Score=43.05  Aligned_cols=22  Identities=41%  Similarity=0.484  Sum_probs=19.3

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.|+|..|+|||+|.+.+.+..
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            7889999999999999977654

>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=87.29  E-value=0.091  Score=46.93  Aligned_cols=26  Identities=35%  Similarity=0.505  Sum_probs=22.3

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-..++|+|..|.|||||++.+..-.
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            45789999999999999999886654

>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=87.22  E-value=0.16  Score=42.24  Aligned_cols=22  Identities=32%  Similarity=0.588  Sum_probs=19.2

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||.+++.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999876644

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.20  E-value=0.16  Score=42.14  Aligned_cols=22  Identities=41%  Similarity=0.454  Sum_probs=19.0

Q ss_pred             EEEEecCCCCcHHHHHHHHHHh
Q 009534          170 IVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -|.++|..|+|||+|++.+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999988654

>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=87.15  E-value=0.15  Score=43.22  Aligned_cols=19  Identities=42%  Similarity=0.639  Sum_probs=17.3

Q ss_pred             EEEEecCCCCcHHHHHHHH
Q 009534          170 IVGLYGMGGVGKTTLLTQI  188 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v  188 (532)
                      -|.++|.+|+|||||...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3678999999999999998

>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=87.06  E-value=0.26  Score=42.76  Aligned_cols=34  Identities=32%  Similarity=0.579  Sum_probs=26.7

Q ss_pred             HHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          156 LDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       156 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ++.+.++|.+   ++..++|..|||||||..++..+.
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcchh
Confidence            5566666643   577889999999999999987654

>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=87.06  E-value=0.17  Score=42.47  Aligned_cols=22  Identities=45%  Similarity=0.564  Sum_probs=19.3

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||+..+.+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999887654

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=87.01  E-value=0.17  Score=41.73  Aligned_cols=24  Identities=38%  Similarity=0.403  Sum_probs=20.1

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-|.++|-.|+|||||.+.+.+..
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            457899999999999999976543

>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=86.96  E-value=0.2  Score=41.41  Aligned_cols=31  Identities=19%  Similarity=0.313  Sum_probs=22.3

Q ss_pred             HHhccC-CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          161 RCLTEE-PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       161 ~~L~~~-~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.+... ..+ |.++|.+|+|||||.+++.+..
T Consensus         5 ~~~~~~k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_           5 SKIFGNKEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             HHHHTTCCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             hhhhCCCeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            334333 455 6689999999999999886543

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.86  E-value=0.17  Score=42.13  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=19.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHhc
Q 009534          170 IVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -|.++|..|+|||||...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47889999999999999887754

>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=86.84  E-value=0.86  Score=38.35  Aligned_cols=48  Identities=13%  Similarity=0.138  Sum_probs=31.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCCC----CCCeEEEEEeCCCCCHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTPN----NFDFVIWEVVSRDLQLGK  215 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~----~F~~~~wv~v~~~~~~~~  215 (532)
                      .-.++-|.|.+|+|||++|..+..... ...    .+....++..........
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   73 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQ-LPIDRGGGEGKAMYIDTEGTFRPER   73 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTT-SCGGGTCCSSEEEEEESSSCCCHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHH-HhhccccccceehhhhhhhhhHHHH
Confidence            357899999999999999999876652 222    123455555554444433

>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=86.75  E-value=0.37  Score=45.17  Aligned_cols=55  Identities=18%  Similarity=0.114  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHhccCCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCC
Q 009534          153 QSTLDRVWRCLTEEPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRD  210 (532)
Q Consensus       153 ~~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~  210 (532)
                      +..+..+...+.   -++..|.|.+|+||||++..+.....+....-...+.+.....
T Consensus       151 ~~Q~~A~~~al~---~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTg  205 (359)
T d1w36d1         151 NWQKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTG  205 (359)
T ss_dssp             CHHHHHHHHHHT---BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSH
T ss_pred             cHHHHHHHHHHc---CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcH
Confidence            345555665553   3688899999999999987654433111112234555654443

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.72  E-value=0.17  Score=42.31  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.4

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||+|++.+.+..
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999887754

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.67  E-value=0.18  Score=41.60  Aligned_cols=22  Identities=36%  Similarity=0.543  Sum_probs=19.3

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||||...+.++.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5688999999999999988754

>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=86.60  E-value=0.16  Score=41.28  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=19.2

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |+++|..|+|||||..++....
T Consensus         4 I~lvG~~nvGKSsLin~l~~~~   25 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGRE   25 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSC
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6799999999999999987543

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=86.50  E-value=0.48  Score=41.12  Aligned_cols=47  Identities=15%  Similarity=0.187  Sum_probs=33.0

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhccCCC--------------CCCCeEEEEEeCCCCCHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSFLHTP--------------NNFDFVIWEVVSRDLQLG  214 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~--------------~~F~~~~wv~v~~~~~~~  214 (532)
                      .-.++-|.|.+|+|||++|..+..... ..              .....+.|++.....+..
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~   93 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNLQ-NPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE   93 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTT-CGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH-hcCCCceEEeecccchhcCceEEEEEecCCcCHH
Confidence            357899999999999999999987652 11              112346788766555543

>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=86.36  E-value=0.19  Score=41.60  Aligned_cols=22  Identities=41%  Similarity=0.623  Sum_probs=18.9

Q ss_pred             EEEEecCCCCcHHHHHHHHHHh
Q 009534          170 IVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -|.++|..|+|||||...+.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999887654

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=86.32  E-value=0.065  Score=44.54  Aligned_cols=33  Identities=9%  Similarity=0.042  Sum_probs=16.3

Q ss_pred             CCCccEEEEeCCcccc--CC----chhcCCCcceeeecc
Q 009534          382 FFSLHKVSIWGSKLRH--VT----WLILAPNLKLIQMYD  414 (532)
Q Consensus       382 l~~L~~L~l~~c~L~~--l~----~l~~l~~L~~L~l~~  414 (532)
                      .+.|++|+|++|.+..  +.    .+..-++|++|++.+
T Consensus        71 n~~L~~L~L~~n~i~~~g~~~l~~aL~~n~sL~~L~l~~  109 (167)
T d1pgva_          71 SPSLRVLNVESNFLTPELLARLLRSTLVTQSIVEFKADN  109 (167)
T ss_dssp             CSSCCEEECCSSBCCHHHHHHHHHHTTTTCCCSEEECCC
T ss_pred             cccccceeeehhhcchHHHHHHHHHHHhCCcCCEEECCC
Confidence            3456666666654443  11    133445566666643

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=86.28  E-value=0.089  Score=43.66  Aligned_cols=93  Identities=10%  Similarity=0.147  Sum_probs=53.8

Q ss_pred             cccccccceeeccccCcceeeecccCCccccccccCCCCCccEEEEeCCcccc--CC----chhcCCCcceeeecccccc
Q 009534          345 ASLRHLEALDMRYCKDLEEMEIDYAGGEVKRIRETHGFFSLHKVSIWGSKLRH--VT----WLILAPNLKLIQMYDCRCL  418 (532)
Q Consensus       345 ~~l~~L~~L~i~~c~~L~~l~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~L~~--l~----~l~~l~~L~~L~l~~c~~l  418 (532)
                      .+.++|+.|+++++..+..-....      ........++|++|+|++|.+..  ..    .+...+.|++|++++|. +
T Consensus        12 ~n~~~L~~L~L~~~~~i~~~~~~~------l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~-i   84 (167)
T d1pgva_          12 EDDTDLKEVNINNMKRVSKERIRS------LIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNF-L   84 (167)
T ss_dssp             TTCSSCCEEECTTCCSSCHHHHHH------HHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSB-C
T ss_pred             hCCCCCcEEEeCCCCCCCHHHHHH------HHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhh-c
Confidence            345789999998765443210000      00012245789999999986664  22    15567889999998874 3


Q ss_pred             ccccccccccCcCcccCcccccccccceeecccc
Q 009534          419 EEIISLEKLGEVPSEEMQNLIPFARLERLSLGGL  452 (532)
Q Consensus       419 ~~i~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~  452 (532)
                      ..-....    .    ...+..-++|++|++.++
T Consensus        85 ~~~g~~~----l----~~aL~~n~sL~~L~l~~n  110 (167)
T d1pgva_          85 TPELLAR----L----LRSTLVTQSIVEFKADNQ  110 (167)
T ss_dssp             CHHHHHH----H----HHHTTTTCCCSEEECCCC
T ss_pred             chHHHHH----H----HHHHHhCCcCCEEECCCC
Confidence            3211100    0    014555678888888764

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=85.92  E-value=0.21  Score=46.28  Aligned_cols=25  Identities=24%  Similarity=0.267  Sum_probs=22.4

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..|.|-|+-|+||||+++.+.+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHh
Confidence            4568888999999999999999987

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=85.78  E-value=0.21  Score=44.96  Aligned_cols=26  Identities=23%  Similarity=0.148  Sum_probs=22.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +.|-|+|+|.+|.|||||+-++....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            46789999999999999999987655

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.75  E-value=0.2  Score=42.26  Aligned_cols=22  Identities=36%  Similarity=0.437  Sum_probs=18.9

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|..|+|||+|..++.+..
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999998876654

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=85.48  E-value=0.15  Score=42.53  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=20.9

Q ss_pred             CceEEEEecCCCCcHHHHHHHHHH
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQINN  190 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~~  190 (532)
                      +...|+|+|..++|||||.+++..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            467799999999999999988754

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.46  E-value=0.22  Score=41.94  Aligned_cols=22  Identities=32%  Similarity=0.481  Sum_probs=18.9

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |.++|-+|+|||+|..++....
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            6789999999999999985554

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.30  E-value=0.11  Score=43.00  Aligned_cols=21  Identities=38%  Similarity=0.542  Sum_probs=16.9

Q ss_pred             EEEecCCCCcHHHHHHHHHHh
Q 009534          171 VGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~  191 (532)
                      |.++|..|+|||+|..++.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            778999999999999876543

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=85.06  E-value=0.056  Score=44.84  Aligned_cols=36  Identities=8%  Similarity=0.119  Sum_probs=19.4

Q ss_pred             cCCCeEEEecCCCCCccccc----cccccccccceeeccc
Q 009534          323 SNTPSLSLTNCRSLSSLSVL----TLASLRHLEALDMRYC  358 (532)
Q Consensus       323 ~~L~~L~l~~c~~l~~l~~~----~l~~l~~L~~L~i~~c  358 (532)
                      ++|++|+++++..++.-...    .+...++|+.|++++|
T Consensus        17 ~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n   56 (166)
T d1io0a_          17 PDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGT   56 (166)
T ss_dssp             TTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTS
T ss_pred             CCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCC
Confidence            45777777765544332211    1334556666666665

>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=84.85  E-value=0.16  Score=42.49  Aligned_cols=24  Identities=29%  Similarity=0.436  Sum_probs=19.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHh
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      ---|.++|..|+|||||..++.+.
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            344669999999999999987433

>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=84.43  E-value=0.35  Score=46.78  Aligned_cols=74  Identities=18%  Similarity=0.227  Sum_probs=47.3

Q ss_pred             CcccccHHHHHHHHHHhcc--------C------CceEEEEecCCCCcHHHHHHHHHHhccCCCCCC---CeEEEEEe-C
Q 009534          147 PTVVGLQSTLDRVWRCLTE--------E------PVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNF---DFVIWEVV-S  208 (532)
Q Consensus       147 ~~~vGr~~~~~~l~~~L~~--------~------~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F---~~~~wv~v-~  208 (532)
                      ..+||.++.++.+.-.+.+        +      ..+=|-++|+.|+|||.||+.+....   .-.|   |+.-+..+ .
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l---~VPFv~~daT~fTeaGY   90 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKFTEVGY   90 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEGGGGC----
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHh---CCCEEEeecceeeecce
Confidence            4689999888887776632        1      13347789999999999999999866   2233   11111111 1


Q ss_pred             CCCCHHHHHHHHHHH
Q 009534          209 RDLQLGKIQESIAKK  223 (532)
Q Consensus       209 ~~~~~~~l~~~i~~~  223 (532)
                      -..|++++.+++.+.
T Consensus        91 vG~DVesii~~L~~~  105 (443)
T d1g41a_          91 VGKEVDSIIRDLTDS  105 (443)
T ss_dssp             CCCCTHHHHHHHHHH
T ss_pred             eecchhHHHHHHHHH
Confidence            134777777776653

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=84.02  E-value=0.3  Score=43.68  Aligned_cols=25  Identities=36%  Similarity=0.444  Sum_probs=21.3

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .|-|+|+|..|.|||||+.++....
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHHc
Confidence            4679999999999999999985443

>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=83.73  E-value=0.1  Score=42.59  Aligned_cols=22  Identities=36%  Similarity=0.463  Sum_probs=19.9

Q ss_pred             EEEecCCCCcHHHHHHHHHHhc
Q 009534          171 VGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       171 i~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      |+++|..|+|||||.+++....
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998654

>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=0.28  Score=42.56  Aligned_cols=24  Identities=29%  Similarity=0.380  Sum_probs=20.0

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .-|.++|.+|+|||||.+.+....
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999975444

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.40  E-value=0.18  Score=41.77  Aligned_cols=22  Identities=36%  Similarity=0.498  Sum_probs=8.7

Q ss_pred             EEEEecCCCCcHHHHHHHHHHh
Q 009534          170 IVGLYGMGGVGKTTLLTQINNS  191 (532)
Q Consensus       170 vi~I~G~gGiGKTtLa~~v~~~  191 (532)
                      -|.++|-.|+|||||..++.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999876543

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=83.07  E-value=0.43  Score=40.73  Aligned_cols=25  Identities=20%  Similarity=0.060  Sum_probs=21.5

Q ss_pred             eEEEEecCC-CCcHHHHHHHHHHhcc
Q 009534          169 GIVGLYGMG-GVGKTTLLTQINNSFL  193 (532)
Q Consensus       169 ~vi~I~G~g-GiGKTtLa~~v~~~~~  193 (532)
                      +.+-|.|-| ||||||++-.+.....
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa   27 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAK   27 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHH
Confidence            457789998 9999999999988873

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=82.89  E-value=0.56  Score=41.59  Aligned_cols=39  Identities=26%  Similarity=0.322  Sum_probs=28.3

Q ss_pred             HHHHHHHHHhccC--CceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          154 STLDRVWRCLTEE--PVGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       154 ~~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      ..+.++...+...  ..-.|.++|..|+||||+...++.+.
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            4444555555443  34467799999999999999999764

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=82.49  E-value=0.32  Score=44.93  Aligned_cols=25  Identities=28%  Similarity=0.122  Sum_probs=20.1

Q ss_pred             ceEEEEecCCCCcHHHHHHHHHHhc
Q 009534          168 VGIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       168 ~~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +..|.|-|.-|+||||+++.+.+..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC--
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHh
Confidence            3458999999999999999986654

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=82.16  E-value=0.4  Score=41.64  Aligned_cols=24  Identities=46%  Similarity=0.510  Sum_probs=20.8

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+|+|+|..++|||||..++....
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhc
Confidence            569999999999999999886543

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=81.54  E-value=0.43  Score=42.55  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=20.6

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      .+..|+|.+|+||||+|..+.-..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            567789999999999998887665

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=81.47  E-value=1.2  Score=39.70  Aligned_cols=64  Identities=22%  Similarity=0.370  Sum_probs=45.1

Q ss_pred             HHHHHhcc-CCceEEEEecCCCCcHHHHHHHHHHhccCCCCCCCeEEEEEeCCCC-CHHHHHHHHHHH
Q 009534          158 RVWRCLTE-EPVGIVGLYGMGGVGKTTLLTQINNSFLHTPNNFDFVIWEVVSRDL-QLGKIQESIAKK  223 (532)
Q Consensus       158 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLa~~v~~~~~~~~~~F~~~~wv~v~~~~-~~~~l~~~i~~~  223 (532)
                      ++++.+.. .+-..++|.|..|+|||+|+..+.+...  +.+=+.++++-+.+.. ...++.+.+.+.
T Consensus        57 raID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~--~~~~~v~V~~~iGer~~ev~~~~~~~~~~  122 (276)
T d2jdid3          57 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIES  122 (276)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHT--TTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             eeeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHH--hhCCCeEEEEEeccChHHHHHHHHHHHhc
Confidence            35666653 2445699999999999999999887641  3344677888887643 456777776664

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=81.37  E-value=0.42  Score=44.15  Aligned_cols=24  Identities=33%  Similarity=0.350  Sum_probs=21.5

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      -.|+|-|.-|+||||+++.+.+..
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            358889999999999999998876

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=80.65  E-value=0.41  Score=41.28  Aligned_cols=40  Identities=18%  Similarity=0.067  Sum_probs=26.7

Q ss_pred             CceEEEEecCCCCcHHHHHHHHH-HhccCCCCCCCeEEEEEeCC
Q 009534          167 PVGIVGLYGMGGVGKTTLLTQIN-NSFLHTPNNFDFVIWEVVSR  209 (532)
Q Consensus       167 ~~~vi~I~G~gGiGKTtLa~~v~-~~~~~~~~~F~~~~wv~v~~  209 (532)
                      .-.++-|.|..|+|||++|..+. +..   ...-..+.|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~---~~~~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGI---IEFDEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HHHCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH---HhcCCCcccccccC
Confidence            46788899999999999997654 333   12223466665443

>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=80.31  E-value=0.51  Score=39.11  Aligned_cols=24  Identities=25%  Similarity=0.141  Sum_probs=20.2

Q ss_pred             eEEEEecCCCCcHHHHHHHHHHhc
Q 009534          169 GIVGLYGMGGVGKTTLLTQINNSF  192 (532)
Q Consensus       169 ~vi~I~G~gGiGKTtLa~~v~~~~  192 (532)
                      +-|.|.|..|+||||+|-.+..+-
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            457889999999999999877653